the front or rear part? the hardtop is rounded on the back so it should fit the back of the door. if the front is not hitting right, try adjusting the body hinges for the door or bending the door frame a bit to fit.
i would not cut a hardtop because of how expensive and hard to get they are. i would bend a set of soft doors to fit though since you can get them on ebay for 50 a set, if you look carefully
I don't feel like working on anything, at this time.