These are what we call the 'YMMV items.' Things that some people find in this work. We call them 'your mileage might vary' because not everyone sees these things in the same way. This starts discussions in the trope lists, a thing we don't want. Please use the discussion page if you'd like to discuss any of these items.
Big Lipped Alligator Moment: "Paperback Honey", from the album Island, made in collaboration with Hilmar Örn Hilmarson. It's a bossa nova song with lovey-dovey lyrics. Their earlier Piss Take Rap song "Crowleymass" would have counted if a remix didn't also appear on Island.
Ham and Cheese: The Looney Runes EP (or at least the A-side) is loaded with it.
And when the seeds begin to grow It's like a garden... FULL OF FUCKING SNOW!
Narm / Narm Charm: Several works in his transitional period (Imperium until Island) contain bits of unintentional hilarity, as Tibet was still getting his feet into the folk rock format. "Beausoleil" from Swastikas for Noddy, apart Tibet's (and every other instrument's) constant howling, Tibet actually sings the line "There's no business like the devil's business" to the tune of "There's No Business Like Show Business" in the middle of the song. The constant "A-raping we shall go, a-raping we shall go…" in "Panzer Ruin" sits high on the list as well. Plenty of fans find this perfectly normal and enjoy it – after all, Current 93's second album had the line "JESUS WEPT" yelled across 14 minutes of run time.
Seasonal Rot: The transitional period between post-industrial drones and apocalyptic folk from 1987 to 1991 had plenty of moments that just didn't gel, for whatever reason. The album Swastikas for Noddy was even re-recorded and entirely resequenced as Crooked Crosses for the Nodding God. Then in 1992, Thunder Perfect Mind came and changed everything for the better.
Squick: The liner notes (and Bandcamp page) for Bright Yellow Moon (done with Nurse with Wound) describe in great detail the hospital stay during which crucial parts of the album were written, as well as the events leading up to it.