Welcome to the boards. I had to chuckle when I saw the year of the car you are restoring, but then I realzied it is almost 20 years old.
Don't have any experience personally replacing tops, but there are people around who do body work. I'll search and see if I can find a thread that will be more help.
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1997 Mustang GT "The Freak" - 13.80 @ 101.70, 2.07 60'
1995 Honda VFR750 - not much @ really fast (actual data pending.)
1964.5 Mustang 289
Rice Haters Club Member #13