Yes, in principle, obstructions could make it miss. But also yes, Javelins fly lofted arc trajectories, unless you take the shot a half a second before the targ

Yes, in principle, obstructions could make it miss. But also yes, Javelins fly lofted arc trajectories, unless you take the shot a half a second before the target is obstructed, the missile will almost certainly be able to maintain lock even if something obstructs your view of the target.