My old 86GT had this same issue when I had the car, now sold 6 years ago.
The tranny shifted fine, but has this "shiny" particials in the oil.
BTW, a transmission is not a easy job if you don't have the right tools. I recommend to find another tranny that is good, or find a rebuilding shop in your area.
In most cases, a good known transmission shop is hard to find. Sorta takes a special touch. Everything has to be done to spec and very precise. Getting the proper "crush" on bearings and pre-loading are critical for a long lasting tranny. Syncros have to be replaced along with the bearings given with the rebuild kit.
Finding a good used tranny is alot easier, but change the clutch as a kit once your there since you have the transmissions dis-assembled.
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fierogt28
88 GT, Loaded, 5-speed.
88 GT, 5-speed. All original.