You can possibly use the trainer on Linux. I’ve used multiple trainers and save editors on Linux before. But luckily for my programs, most of them let me find and choose where specific directories are within the program itself.
Since it sounds like your program doesn’t do that, you’ll need to find where your game is installed. Since the game is a Windows game, most likely whatever directory it’s in will have a Windows layout.
You need to set a wine prefix to set it to use that directory, as if the program is working in that directory. It’s easier via Lutris imo. That is what I used for some tools.
Unfortunately you’ll have to look up how to set that all up yourself since I don’t have the program in front of me, and don’t have access for a long while.
Easiest way is to install a game via lutris, see how that is set up, and follow the same kind of setup to setup for your trainer.exe