Hi Troy,

if/else only operate on one instruction or block. To operate on multiple instructions place them in a curly bracket block. You might read this article.

Code:
/// Handle Flood Coolant Pump
    result = Debounce(ReadBit(FLOODBBIT), &cocount, &colast, &colastsolid);
    if (result == 1)
    {
        if (ReadBit(157) == 1)    //FloodPump
        {
            ClearBit(157);        //FloodPump
            ClearBit(1062);        //FloodButtonLED
        }
        else
        {
            SetBit(157);        //FloodPump
            SetBit(1062);        //FloodButtonLED
        }
    }