walk around the car on a level pad and see if the bumper bolts are the same height side to side. Or use the wheel opening lip on the fenders. If they are even close, don't worry. As long as the door opening cracks and the rest of the body parts appear to be even you shouldn't have any concerns.
Driving down the road or sitting still, the car is resting on about six points. two for each leaf spring and one for each front swing arm. Locate your jack stands as close to the center of your front suspension as possible and under the rear axle. Level side to side is good, front to back makes no difference.
Have you decided on what configuration you want for your connectors? I used the Crites type installation with 1.5" x 3" 0.080 wall steel tubing laid with the long axis flat. Pictures to follow. Mine angles outward from front to back to catch as much of the torque boxes as possible and leave room to weld around the ends. You will find with the Crites type connectors that the seat brace hangs down a little lower than the torque boxes. No sweat, you will just be pre-loading the structure a bit. The two pieces of 16ga tin that reinforce the seat braces can be cut from a single 12" x 12" piece. It has a 90* break and a 45* break to fit. Be sure to drill the hole for the seat track and leave clearance for the frame connector to pass by and allow for bolting the seat down.
Figure out ahead of time how you are going to finish off the ends of the tubing (two pcs 6'-6" and trim to fit) and grind where you plan on welding until you have bright steel. Get a can of weld thru primer too since you will be creating inaccessible places for later coatings. Be aware that the torque boxes were galvanized at the factory and you won't get a good weld to that coating....grind it off where you will weld.
Think 0.080 rectangular tubing is not thick enough? The whole car is made of sheetmetal and managed to last 50 years or so. Adding a lot of weight with 1/4" wall tubing is way overkill and if you car actually needs it, you have a lot more problems that this isn't going to solve.
Remember, the Thunderbolts did not have subframe connectors.
I put these on years and years ago and the first difference I noticed was the suspension working a lot more and a lot less complaining from the body.
Subframe Connectors Photos by w2zero | Photobucket
If you need more than this, you might as well just build a frame or buy one from Art Morrison.