The steering neck tube sure looks cocked over in all your pics. you can check your symmetry and alignment with a plumb bob by first ensuring the bike is stable and level across the lower loops, and fore and aft at the lower loop tube, then dropping a line off each frame tube outboard side in front of the motor, and off each swingarm pivot hole. Connect the points on the ground into a 4 sided shape. The resulting quadrilateral form should measure the same dimension diagonally from either front corner to the opposing aft corner, indicating that the lower frame tubes are parallel to each other. With that estabished, measure and mark both lateral lines' centers, and draw a line through them, which should intersect with criss-cross lines from opposing corners. Extend the plane of these 3 lines forward on the floor about 2 feet. This represents an extended centerline of the frame. Remove the steering stem and drop a plumb bob through it, letting it rest naturally to the lowest point on the lower bearing, and this will represent where the bottom of the stem is located relative to the centerline. If it does not fall on the extended centerline on the floor, you have a frame issue at the neck. If it does fall on the centerline, and the tube can be verified to be perpendicular to the level plane (I'd use an optical level and a machinist's scale for this, but I'm like that. Hard to explain how it all works, but it's a place to start. If that steering tube is on center and vertical, then I would look to the clamps, the lower bearing installation, or even the stem installation next.
