Generally it is considered better to have all the transisistors arrayed in similar environs, which will improve matching, and the wiring can be crazy as long as you are not, say, crossing wires where coupling matters. The MiM capacitor connects metal3 (bottom) to metal4 (top), but it's not a good practice to wire out from the bottom plate directly, so the contact on the side connects the bottom plate up to metal4. So you connect metal4 to the center region of the MiM (cap top) and to the contact on the side (cap bottom). Connect pwell or well to source with metal1. You can use local interconnect, but it's better to keep the local interconnect geometry the same on all devices, again for matching. The further up you go in metal layers, the less impact it has on matching. And yes, you can edit parameters of an existing cell. Just select the cell ("i" key) and type "Ctrl-P" to bring up the parameter edit window.