I would prefer 2.5" with a long muffler mounted in the stock location. straight out the rear, and not a 90 degree behind the rear wheel. 2.25 is ok to "create more backpressure", but not ideal for performance with a 2.4l sized engine. If increasing torque is the focus, I don't think upgrading the exhaust system in any way, would be benificial to that respect. When you increase the flow of the exhaust system over the factory unit, the torque will minimally increase naturually, or flatten out when compared to the factory unit.
The outlet on the OBX header is 2.5", the rest of the exhaust should not be smaller. I doubt the OBX header will bolt up to anything smaller actually, because the previous OBX header I had on my civic w/B18c swap had a 2.5" outlet, and I had to install an exhaust with the same diameter in order for it to bolt up. I dynoed it with the factory header and exhaust and then with the OBX header and 2.5 exhaust the tqe increased 3 ft/lbs to 119ft/lbs and the hp increased 12hp to 174hp. This is on a 1.8l engine. Now with the Element, we are talking a much larger engine, that is designed to produce tqe over hp, i think 2.25 would be crippling it somewhat.