I agree with psavola here that "use appropriate weapons" is an inadequate solution and in my oppinion moving convoys don't add anything meaningful to the game on top of being counterintuitive.
It is a
convoy, not a single vehicle. Using real-world examples, you usually disable the first vehicle in a convoy to present an obstacle and slow-down the following vehicles. You don't have to precisely target the engine block or the tires of all the vehicles in a convoy to get it to stop.
Solarius, how does the equivalent of a
Sidewinder or a
Phoenix (if we assume that they can somehow target ground based vehicles) obliterate a whole convoy of multiple vehicles? Even a single
Hellfire missile is not going to utterly delete all vehicles of a convoy. Please stick with stationary convoy targets. Parking an assault craft with a heavy combat team in the path of a couple of vans should honestly be enough to get the hybrids to stop and defend themselves, given their lore background, them not being panic immune and being able to surrender normally. Their vans are obviously not bullet proof and they are (supposedly) carrying valuable cargo.
X-Com has access to fast transport vehicles. Just chuck a couple of these in front of the convoy, no shooting or strafing needed: