I solved a similar problem on my WinterWarm Small insert, with secondary air control very similar to Intrepid. Here are my notes.
(1) Secondary air flap may be binding, and linkage may be popping out under stress. Check that door operates smoothly and freely by hand throughout operating range to eliminate this possibility. The screw which serves as the pivot for this door is supposed to have a small round wire washer serving as a bushing to provide a bearing surface for the door pivoting action, and as a depth stop to prevent the screw from binding the door against the stove surface. Check that this is in place and not malformed.
(2) Is the linkage a short piece of wire with an "L" shape on one end, and a "J" shape on the other? If so, there are four possible permutations of how this might be installed (J on top facing out, J on top facing in, J on bottom facing out, J on bottom facing in). Take a picture or describe how you are setting the linkage. Would one of the other permutations be more secure? I put the J on top. Possibly the L needs to have its angle closed a bit more like 7.
(3) The coil thermostat which operates the linkage may be misinstalled or improperly oriented. In other words, it may be trying to push when it should be pulling. Use a heat gun or even a lighter to activate the bimetallic coil and see which way it wants to move the air door. Obviously, as the coil heats, it should be closing the air supply.