Yep, I just concluded a complete chassis restoration on my TR3. The bolts that hold the steering box and idler bracket, along with the front bumper brackets to frame, are all 3/8's, not 5/16ths. Besides, absent significant heat from an acetylene torch, the bumper bracket bolts were rusted solid. Maybe yours is different, but no amount of pounding with a hand sledge would remove those devilish bolts (I thouroughly coated with anti-seize on re-assembly).
Your best bet is with the rebound bracket. There aren't too many other places on the TR3, where 3.5" bolts were used, so give that a good look. Beyond that though, the only thing I could think of is a body mounting bolt that runs through the floor pans through a long collar on the frame (to the left and right of the transmission bellhousing). I'd be surprised if this was it, as most of the time these are rusted solid, and the bolt would have to have been originally upside down to fall out.