If you don't have to cross it, then just avoid it altogether.

Otherwise:
1) Turn off the A/C
2) Overrev the engine and ride the clutch throughout the flooded portion
3) Pump the brakes every so often and brake farther from your usual braking distance. The brakes are weaker when wet or submersed.
4) Kung may magtutulak eh patayin nalang at ipatulak

After clearing the flooded portion

1) check sections of the intake for any water
2) check the distributor if its contaminated
3) pump the brakes again just to be sure that you have your brakes back to normal

Detailing shops can remove your carpet and clean it off the car. This is the best way to do it rather than cleaning and drying it from the inside.