One for a series as a whole, namely in the series finale that with all of the family moving to different parts of the country, Phil gets Carlton, Hilary and Ashley to agree to call himself and Vivian at least once a week on Sunday, and as Phil leaves the house for the last time, he looks fondly at Will and simply says "Sunday."
That entire episode was heartwarming. Every interaction Will had was closure and love. Especially when Phil tells Will that he is his son, because Will wanted a father throughout most of that series, and the one time that his father did appear led to one of the biggest Tear Jerker episodes of the series.
Will joining Carlton in dancing and singing to "It's Not Unusual" by Tom Jones. This is especially heartwarming, since he was shunned for the song, and that in the end of the show's run, Will joins in.
Uncle Phil calling out Will's father for abandoning him again was this as well as a Crowning Moment of Awesome. For all his annoyance, Phil really cares about Will.
Also from the finale, Hilary snottily demanding that Geoffrey take her bags to the car. When he comes in, she reveals that she was just kidding and wanted to say it just one last time, only to have Geoffrey pick her things with a smile and say "It would be my pleasure".
Geoffrey setting up a poker night for 13 year old Ashley, when she can't go with the rest of the family to an event and feels left out. He sets up a full poker table and at first they bet cookies, when she says she still feels like she's treated as a kid he gets out his wallet. Ashley proceeds to wipe the floor with him. It's a nice moment from the usually snarky Geoffrey and shows that Ashley may be his favourite member of the family.
In Bullets over Bel Air, Everyone reacts their own way when it comes to Will getting shot. Props go especially to Hilary, while her demands at the hospital seem to be her snotty self on the surface. Inside, she just wanted to help her cousin out anyway she can. Especially since for once it's not for her, it's for Will.
At the End of Just Infatuation, Will watches Ashley doing her hair and smiles and we get a flashback of how when he first came to the household she was the one who liked him first despite his antics clashing with her family and Will's been protective of her as she was the youngest of the family and she's growing up before his very eyes.
Also from the finale: In the first part, Geoffrey suggests to Philip that it would be a wonderful gesture to give him a first-class one-way ticket to London on the Concorde in lieu of his spring bonus. Philip, known for his thriftiness, tries to wager it down. Then, at the end, Philip presents Geoffrey with a first-class ticket to London.
Geoffrey: In lieu of my spring bonus?
Philip: In addition to it. *presents Geoffrey with an envelope*
Also from the finale: Philip asks Will when Jazz will come by to pick him up; Will replies that he'll come as soon as Philip leaves.
Philip: (Laughs) Good idea...but when he comes by, wish him all the best from me.
At the end of "Hilary Gets a Life" (Season 2 Episode 39), Hillary's about to quit her first job as a caterer in tears. Geoffrey tells her that he raised her, and that "Geoffrey don't raise no fools", and gets her to pick up a tray and walk into the party like the Queen of England.