I was having some "modding fun" and was installing Vurt's various flora mods and SWG's skies (and maybe something more), but now that I load a game or start a new one, it crashes after "Loading Area" has gone to 100%.
I have tried disabling pretty much everything; distant land, all plugins and shaders and whatnot, But nothing seems to help.

Nothing like this has ever happened to me before, so I have no idea where I would find crashlogs of any kind? I guess there's some kind of a broken mesh or texture that's causing it since disabling the plugins don't help, so there's a LOT of files that would have to be looked through...

The only really useful stuff that Morrowind logs will be in "Warnings.txt" in your Morrowind directory. Not all crashes will result in something useful, particularly if you are having driver problems.

Sigh... I guess I'll have to spend hours on downloading mods again... Great.

Did you try starting a New Game?
It might just be your Save that is ruined.

Yes, I tried starting a new game (I even said so in my first post )