Talking the Monster to Death: Lucy gets this at least twice. Once in her fight with the rock-and-roll assassin in the Tower of Heaven, where she specifically talks Juvia out of the Mind Control that she has been put under, and later in the Oración Seis fight, where Lucy convinces most of Angel's Celestial Spirits to defect.
On the final day, Erza, Kagura, and Minerva get into a three way battle, and Minerva manipulates Kagura's rage at Jellal to make her go Ax-Crazy on Erza.
And from a later arc, Fairy Tail is trying to save a village that's been frozen in ice by finding the Eternal Flame. A treasure hunter (read: pirate) guild has shown up to steal this flame, but the real enemies are Minerva and Doriarte, who want to kill everyone there.
This seems to be Mashima's favorite trope now. From the Tataros arc, you have Fairy Tail as the good, Crime Sorcičre and Oración Seis as the bad, and Tataros themselves as the evil.
Jose is not happy with just firing a Wave Motion Gun at the ruins of Fairy Tail's base and its wounded members. He then turns his own base into a Humongous Mecha Wizard, which proceeds to draw a magic seal that will wipe out an entire town.
Likewise with Laxus attempting Fairy Law during his arc.
Natsu in the Edolas Arc (justified considering the humans there are ready to not only kill all Fairy Tail members, but even to slaughter a whole species just so they can continue using magic for amusement purposes). Cue Unstoppable Rage.
Also Natsu when battling Zancrow after seeing that Grimoire Heart's Master Hades had given Makarov a giant buttkicking.
The general guild reaction to the attack by Phantom on Shadow Gear.
Black Wizard Zeref tells Hades that making him forget his compassion is an unforgivable sin. Then he kills Hades in cold blood.
Time Skip: Gets one after the S-Class Trial arc, of seven years, no less. And the series actually manages to subvert this trope. Those who were on Sirius Island were frozen in time, so they didn't age one bit and feel like a few hours have passed, while the rest of the world is seven years older. Also "Those who were on Sirius Island" consists of the entire main cast (Natsu's team) AND nearly all the important secondary characters (Juvia, Gajeel, the Take Over siblings, Cana, Makarov etc). Only a small handful of characters experience the skip.
There is another one just a few chapters later, but it's only three months. Hilariously enough, the main characters go through a similar subversion again, spending a day in the Celestial Spirit World while the three months pass in the real world.
Time Stands Still: Racer's power is not super speed, but slowing down everybody else's perception of time to make him seem faster Which causes some Fridge Logic. Earlier, Brain ordered him to fetch Jellal's coffin, and he said it would take at least half an hour. If his powers basically allow him to slow the perception of time of everyone in a determined range, then he was as good for this task as everyone else. However, this could be explained that he used his Dead Gran Prix motorcycles to do it. Also, maybe he'd fooled his own allies about the nature of his power.
Together in Death: Future Lucy and the rest of Future Fairy Tail following the destruction of the Eclipse Gate.
Also, in the Galuna Island arc. Turns out the villagers weren't humans cursed to turn into demons, but shapeshifting demons who were cursed into forgetting what they were and start to think they were humans. But, fortunately, Our Demons Are Different.
Mystogan turns out to be Jellal's look-alike.
Everyone in Cait Shelter but the leader, Wendy, and Carla were illusions the leader created so Wendy could have friends, and the leader himself is only a spirit.
Too Dumb ToSee: Natsu screams out fire, after seeing Makarov lose his trunks, Gray and Gajeel look through the telescope anyway.
Took a Level in Badass: Strangely averted for Lucy, the main character. She is getting better with her celestial spirits, but she's still not at the same level as Natsu, Gray, or Erza. Then again, those three are pretty damn powerful.
Lucy officially takes a few levels after unlocking her Second Origin. She can now summon multiple spirits at once, combine their attacks, and double her magic power with Gemini to cast Urano Metria on her own.
Unfortunately, that didn't stop her from getting beaten silly twice, whilst battling against Flare and Minerva (granted, she would've won against Flare, if it weren't for her cheating).
The S-Class Trial is put on hold after barely 10 chapters however, and what follows is the (as of yet) longest arc in the series with the regular formula of unorganized fights against an evil Dark Guild. Also, the Grand Magic Games are strongly implied to be Not Just A Tournament.
Tragic Dream: Jellal's dream of a world of freedom may count, in a sort of twisted way.
Training Montage: Triple Subverted, when preparing for the Grand Magic Games. It's set up perfectly for one, but it turns out the celestial spirit world is in trouble. Looks like they're going to be busy for the next three months... Oh wait, it's only a party, looks like the Training Montage is back on! OH WAIT. Maybe not.
Transformation Is a Free Action: Averted in the manga—Erza is known to be exceptionally fast with her Exquipping. In the anime, they play it straight when she's bringing out the big guns.
Later, Brain / Zero's spell "Genesis Zero" is pretty much this, only with a tsunami of black shadows.
The Unreveal: Used in Chapter 297 when Jellal finally confronts the hooded figure with Zeref's aura. While her identity is apparently quite shocking, the audience has to make due with a To Be Continued notification.
Unwitting Pawn: Jellal is victim of this twice. He spends eight years as Ultear's pawn, and then Brain uses him to awaken Nirvana. To a lesser extent Reitei Lyon and his entire group, everyone working under Jellal in the Tower of Heaven, the first magic council. Basically, if you've spoken to Ultear, assume you're being used.
Upgrade vs. Prototype Fight: Despite Natsu and Gajeel being first generation dragon slayers, they show themselves capable of curb-stomping third generation ones (dragon slayers who are not only taught by dragons, but also have lacrima implanted in them).
Jellal (subverted in that he was being manipulated) and the Kingdom of Edolas who used magic to suck up lands made up of innocent people from an alternate universe and turn them into crystallized magic. Just so his kingdom could continue using magic. The king, Faust, takes it a step further by being willing to sacrifice even his own subordinates just to achieve his goal.
Mystogan as well, in case you didn't believe he really was Jellal's Edolas counterpart.
Almost all of Lucy's celestial spirits have one based on the animal they resemble. Amusingly, Sagittarius (who looks like a human wearing a costume) adds "Hello Hello (Moshi Moshi)" to everything he says, and Cancer suffixes everything with "ebi" (a.k.a. prawn). That last one really disappointed Natsu and Happy, who were certain that he was going to say "crab" as his tic.
Looks like all the male cats in Extalia do this as well. Happy's dad says "Kaah!"
Ichiya and Nichiya say "Men!"
Hot Eye/Richard and "Yes! (desu ne/Desu yo!)" ("Oh yeah!" in the dub.)
In the anime, Hughes and Sugarboy qualify as well too.
The realization that he is alone, his underlings are defeated, and everyone else in the guild are risking their lives to stop him completely shatters Laxus' composure. Unfortunately, instead of collapsing, he goes into Unstoppable Rage.
The Oración Seis seems pretty prone to this. Both Racer when Lyon figured his powers out and Angel when Gemini disobeyed her in favor of Lucy's kindheartedness towards celestial spirits have broken so far. Brain has a pretty good one here too, with eyes bulging out and everything.
Edolas!Erza when she's screaming about how Edolas will suffer without magic. Like Laxus, she also goes into Unstoppable Rage, not that it helps.
Gildarts' power causes everything around him to be destroyed if he doesn't pay attention and control it. He is alsoThe Ditz. The town Fairy Tail is based in actually changes shape to accommodate his presence by elevating all the houses and creating massive straight roads leading directly to the guild.
Natsu suffers from an extreme form of motion sickness. Lampshaded when it was first revealed. Oddly, the fact that he can use Happy to fly does not cause this. This is pretty ridiculously HandWaved by Natsu simply stating that "Happy isn't a vehicle!". This from the guy who gets nauseous on top of a still raft. Also, Happy isn't a vehicle, but apparently Lucy is.
Turns out, ALL Dragon Slayers have this weakness eventually, apparently including both 1st and 2nd Generation.
Subverted so far with Wendy, she doesn't seem to have any problems with vehicles (and if you think she's casting Troia note that Wendy says casting the spell too many times lowers its effectiveness so sooner or later she'd be showing signs of motion sickness if she were using the spell on herself).
Then again, she's probably too young to be a 'real' Dragon Slayer already, and thus for the motion sickness to kick in. And it might take while, since Gajeel's only got it very recently.
Edolas!Natsu has the exact opposite weakness. He's only Badass while he's in a vehicle. Otherwise he's a complete wuss.
Fried really cannot handle himself around fanservice. Too bad for him then that not only are his opponents in Chapter 204 women, not only are they in bikinis due to the temperature, but both of them can summon even more women. Subverted in that he was faking it all along as an excuse to lose to his opponents out of guilt about nearly killing them in the past. Bickslow even calls him out for choosing such an unbelievably ludicrous weakness.
What the heck happened to Erigor "the Shinigami" and Kageyama from the Lullaby arc? Erigor showed up again in Episode 55 of the anime, only be easily beaten by Natsu and have his clothes stolen by Jellal. He shows up again as a member of the Oración Seis.
He shows up yet again as a member of the Reborn Oración Seis during the Key of the Starry Sky filler arc.
Where the hell was Angelica during the Nirvana arc?
Whatever happened to Gray's smoking habit from the first few chapters??
What happened to the 13th Gate key, Yukino hasn't used it since it's debut despite being in several situations where it would come in handy.
What the Hell, Hero?: Sugarboy informs Gray that the key to the Dragon Cannon can be used to change everyone back from Lacrima, and then freaks out after Gray destroys it anyway. Subverted when Gray reveals that he can duplicate the key out of ice.
Whip It Good: Lucy sometimes carries a whip, typically one that ends in a spade/heart shape.
Whole Plot Reference: The entire Tower of Heaven arc is full of parallels to the Etherion arc from Rave Master, the least subtle of which being that the villains of both look almost exactly the same. Other similarities include the casino beginning, the way Jellal is completely dismissive of Natsu, how he believes he's in the right, the way Natsu sets down an unconscious Erza and talks about what she's supposed to be like-but isn't thanks to the villain, and even the fireworks ending.
Wildcard Excuse: Happy's answer to questions such as "Why are you blue?", "Why can you fly?", or "How come you can talk?" is always "Because I'm a cat!" cheerfully and likely intentionally ignoring the fact that these questions are because he is a cat. ... and then not even THAT is correct, as he's just a fantastical creature that only resembles a cat.
Alzack and Bisca are this trope personified. It's their main character trait, even. The ultimate answer? They Do.
Not as prominent, but there's plenty of this between Erza and Jellal as well.
Writers Cannot Do Math: The seven year time skip starts in winter X784, and it's stated to be spring X791 when it ends. For it to be X791 the time skip would have had to have been more like six years and a quarter, while for it to be seven years (and a quarter) it needs to be X792.
Unless Winter comes before Spring like some places in the real world
The Worf Barrage: A sustained assault against the Big Bad of the Sirius Island arc, from a united front of various Fairy Tail members using some of the most powerful techniques seen in the series so far, successfully destroyed his cape and made him mad (maybe he liked the cape).
Zeref also gives one to explain how Ultear beat him. His explanation can be summarized as "because I didn't want to kill her, my magic was ineffective. Now that I'm out for blood I'm back to full power."
World of Badass: Actually subverted. Despite the fact that there are loads of Badass characters, who tend to hog the spotlight, only 10% of the Fairy Tail world's population can use magic. But Grimoire Heart plans to use Zeref to create such a world, where only the badass can survive.
This seems to be in effect for the entire world of Fairy Tail, actually. There doesn't seem to be a distinction made between genders at all, at least as far as fighting goes.
Natsu actually invokes this when he suggests a round of fighting to find out who is the strongest wizard in Fairy Tail.
Happy: "Natsu... I don't think you should go picking battles with girls..." Natsu: "Guys or girls has nothing to do with it!!"
Xanatos Speed Chess: Brain in his plan to obtain Nirvana. He originally intended to get it by himself, but when he realized that Wendy was with the group sent to stop him, he used her to make his plan move faster, having her heal Jellal, who would in turn fetch Nirvana for him. When Jellal attacked him, instead of going This Cannot Be! he ordered Cobra to follow him. His assumption was right, as Jellal restarted Nirvana... With the intent of destroying it. But, instead of breaking down or trying to force Jellal to obey him by any meaning, Brain simply deactivated the self-destruction spell Jellal cast on Nirvana, succeeding in his plan at last.
You Gotta Have Blue Hair: Naturally, Jellal is the first that comes to mind here. Other people with unrealistic hair colors include Natsu, Levy, Juvia, Wendy, Bisca, Fried, Erza, and Cobra (you can have somewhat red hair, but not that red), and Mirajane, Lisanna, and Elfman, since their hair seems to have always been white.
Brain gives Cobra this treatment after Natsu nearly beat him with a single roar.
Brain:(after shooting Cobra in the shoulder) "I don't need the six demons if such an average guild can defeat them so easily, you trash!!"
Yukino was forced to strip and erase her guild mark, therefore kicking her out of the guild after losing to Kagura.
Subverted. Sting and Rogue after losing to Natsu and Gajeel. They were beat up by their guild master and when Sting's Exceed tries to reason with their guild master, he was promptly killed (or so we thought).
The Edolas arc: Team Natsu manages to keep the Lacrima from crashing into the Exceed homeland and Mystogan suddenly arrived to warp the Lacrima back to Earthland, back to their original forms. Everyone begins to celebrate and things seem peachy... then Erza Knightwalker fires a shot at Pantherlily and comes after the group with the Edolas army in tow!
End of the S-Class Trial arc: Fairy Tail manages to repeal Grimiore Heart despite taking some serious damage and wounds. All the members come out alive and are healed. Laxus is back even though no longer a member and Cana reveals to Gildarts that she is his daughter who then accepts her. All seems right with the world... wait whats that ominous evil looking dragon over the island?
Zero Approval Gambit: Mystogan decides to unite Edolas... by draining it of its dwindling magic and offering himself up as the villain that Pantherlily will kill, thus making him the new king. Pantherlily has some complaints with that plan, and wants to turn it around so that he'll be the villain, and Mystogan, who is Edolas' long-lost prince, will be the hero. Things hits a serious snag when both of them realize they can't bring themselves to kill the other. Natsu, Gajeel, and Wendy manage to salvage the plan by posing as rampaging demons for Mystogan to defeat, and the reverse anima conveniently sucking them back to Earthland makes it look like they "died" by his hand.