Strange Texture alignment Issue

So I'm making a wad using Dsda Doom as its source, and all the textures look fine and aligned for the map. But upon loading the wad today with Gzdoom I was shocked to see that all the textures where showing as misaligned and the midtextures where all messed and hanging on the wrong places/heights..

I'm so puzzled and weirded out because I took all this time to carefully align my textures.. Do I have to go back to Gzdoom and align all the textures there or will that mess things up on the DSDA doom end? I'm feeling so confused and bummed..

Extra info: The textures appear misaligned when I go ingame using Gzdoom, however when looking around in the the editor using Gzdoom, they appear to be fine all of a sudden  (just like in DSDA doom), even more confused now..