Tacoma boxes are fiber-reinforced resin, so they are probably fairly stiff. The bolts are sleeved that go through the bed floor to the frame, so there's accommodation for movement. In fact there's enough movement that the bed will squeak when the material under the bolt heads wears down. This allows the box to burnish the tops of the supporting towers and it's annoying. I made UHMW pads to fit between the box and frame to get rid of it. The beds themselves are completely different in construction. The inner bed is a single molded cavity and the fenders are essentially just cosmetic skins. So the real strength is the composite inner bed, not the bed rails.
https://www.tacomaworld.com/threads...-flaw-explanation.388873/page-3#post-12873622
When I mounted my WilderNest on my Tacoma I anticipated the additional flex, at least compared to the truck I had it mounted on before, a 1991 Hilux/Pickup. Those had relatively rigid frames, fully boxed, and the beds themselves were double wall construction with welded seams. So they were also relatively rigid.
On the '91 the 'Nest was bolted directly through the bed frame rails with six 5/16" bolts and a layer of closed cell foam to seal against water and dust. That stuff squished flat instantly, its pretty cheap hardware store junk. But none-the-less it lived like that for at least 12 years only getting removed to replace the foam once in a while and clean the camper. The fiberglass developed a few stress cracks in the gel coat from the knocking around off road but it was manageable.
Fast forward to the Tacoma. I removed the top plastic plate to give a flat surface all around, then put a 1/4" layer of solid rubber on the bed rail and closed cell foam on top. Used four 10mm clamps to the cargo rail instead of through bolting. The camper is held fast but I am trying to let it have some give and isolate the vibration and movement. I've had the 'Nest on my Taco now for about 6 months and haven't done a tremendous amount of off road. White Rim, knocking around San Rafael.
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I heard and subsequently noticed a sizable crack in the structural fiberglass around one of the ribs last week with the truck crossed up. So there's more flex in the Taco frame than I assumed. I'm rethinking how I mounted my 'Nest, not sure if I'm going to try isolating the camper more or reinforce the bed rail.
I don't want to build a subframe that ends up actually stiffening the frame but I think letting the camper float relative the bed rails is important. I'm trying to find a suitable rubber substitute for the 3 stacked washers in the mounting bolts (these were necessary to prevent pulling the mounting rail down). I think that ended up being too rigid and is still twisting the camper. It's not clamping down on the bed rails all that hard it's still focusing a lot of force on four stand-offs.
What year is your Tacoma? I know the 2nd gens and the 3rd gens have kinda flexable bed sides. If you have any weight on them like a roof top tent it's a good idea to get some bed stiffeners like these -
https://www.chaosfab.com/accessorie...PKxyBMjOjIhdDcgJL4TrWCiQnf9Hnz5QaAssAEALw_wcB