that kind of depends on how the switches are setup, but if I were to guess on how you have them installed, yes, they should be on the other side!

It's easy to get confused. But the main thing is you need to think as the CUTTER not the table. 0,0 is usually on the left corner of the part, towards you. The CUTTER moves to the right with positive X numbers (which means the table moves to the left!) and the CUTTER "moves away" from you (which means the table moves towards you) with positive Y numbers.

Z positive is up, usually no confusion there

Rig whatever numbers you need to in Mach to make it happen like that. Now for jogging, I have it set up backwards - I think of jogging as moving the table to the right spot so the cutter can take over. I realize it's wrong, but I was doing it wrong for a few months before I realized it, so I'm sticking with it for now. I recommend you set it up correctly and just get used to it