I've seen a specific creature tileset issue come up.../snip
Yeah, it's not a complete clusterfuck, but still an existing problem that we're working on. Unfortunately I'm not seeing a 100% foolproof solution for this yet, but the problem has come up multiple times with mod merging and also it was more-or-less the same when the 40.13 update happened and the language files broke. As PeridexisErrant mentioned, the temporary solution is to make sure we don't break the files.
To the point, creature_savage_tropical.txt was removed in 42.04. With the exception of the giant desert scorpion all were moved to other files AND renamed (e.g. LION_GIANT was changed to GIANT_LION, etc.)
Thx, I missed the fact that they were moved, and not removed, I fixed what I could, the rest is up to the original author.
I skimmed the DFGraphics repo and even the most recent Gemset for 42.04 has definitions that are 2 months old and I visibly see a graphics definition text named "graphics_savage_tropical.txt" in the set
Unchanged files will be shown as 2 months old.
I removed savage_tropical.txt from /objects where it would have caused problems, even save breaking problems, but leaving graphics_savage_tropical.txt in place was intentional, as it's harmless, but contains useful information for completely updating the set to 42.x. Worst case scenario is some mismatched sprites. I didn't publish the link until I could confirm that I can load a game that was generated with a different set.
The set is not complete, true, but without the graphics sources, and a permission from Palatino I wouldn't start editing someone else's IP. Creatures were moved around and added, so new sprites are needed, then the sprite sheets will need to be reorganized, then the config files will need to be updated. It's a process, this is merely the first step: getting the objects folder up-to-date. On the other hand: I really should give him a notice, that more work is needed...
While he is nuts for trying to maintain all of those sets at once, I think everyone in the LNP community would commend him for his contributions.
To be fair what I do is not that hard, I'm not doing creative work, and merging the raw updates is usually ‹5 min per set, kdiff3 is an excellent tool for this kind of work. The only set where I'm contributing content is Spacefox (which I consider an abandonware), and even then a fey mood is needed. My attention span can be rather short.

Edit: I didn't see a DFgraphics repo thread, so I thought this was the best place to post something that addressed all LNP packs.
I can't speak much to fricy's graphics packs (though @fricy it would be good to have a thread for them, hint hint)
Ok, ok, I'll get on it. It will be needed anyways, since I won't have much time on my hand between April-August. I'll make a thread for the repo, and create an organization on Github with all the individual packs, so others can keep the flame going when I'm not around.