Noatation in Full Score differs from Parts (automatic changes)

I posted my question on Facebook and was redirected for more insights, i copy-pasted teh entire post and hope you might be able to help me further. I'll attach the original file and the screenshots I made earlier.

Today I found myself in a weird position. I am woriking on my first string quartet when I discovered that two bars of the viola part in the score look different from the one in the parts. The parts version is the correct version. Copy pasting the 3 bars from the parts to the full score made MuseScore crash, when done only bar 90 that worked, but copying bar 92 crashed musescore again. Any clue as to how to fix this?
[edit: changing bar 92 in score itself als changes it in the part but always wrong/different from eachother.]
[edit #2: I update as I go. Selecting the section and uncheck the play box under the properties tab also changes the position of the notes, checking and unchecking the concert pitch box doesn't make a difference (as it should)]
[edit #3: Last update: Issue solved by deleting the three bars and reinsert three new ones and re-write the section, which included the other instruments as well.]
[Edit #4: not the last update. After restoring the previous section I checked other parts of the score now have discrepancies too and I am not happy about it. Anyadvice, tips are welcome on how to solve this without rewriting everything.]