In what order to I put the spark wires on back on the distributor?

Exactly which Civic do you have? 1991 Honda Firing Orders (http://autorepair.about.com/library/firing_orders/bl-honda-firing-91.htm)

The rotor will point to the No. 1 spark plug terminal in the distributor cap, when the No. 1 piston (closest to the crankshaft pulley) is at TDC. From there, the firing order is 1-3-4-2 (going in a clockwise direction around the distributor cap).