Do make sure the motors and fan are secured and working properly. Make sure the motors are plugged directly into the Coal-trol, no timers, rheostats, or other electronics inline between the Coal-trol plug and the motor. Put the manual controls to maximum settings. Run the TEST mode on the thermostat to cycle through the motors and make sure they are plugged into the correct receptacles on the control module.
You said the fire output of the stove is significantly less than yours at the same settings. Have you gone through the MAX adjustment procedure? When you put the thermostat on the MAX setting screen and leave it there for 30 minutes or so, do you get a full grate of fire? How much ash is on the end? If there is more than 1.5" of ash, increase the MAX setting and let it settle out at the new rate (20 minutes or so) and then check again, decrease if 1" or less of ash on the end, repeat as needed.
If you are unable to get a good burn in this mode, verify that the stoker control is working correctly by counting how many seconds the stoker motor is turned on when it comes on. The MAX setting displayed should be close to the number you count. If that checks out then make sure the manual controls are set to maximum and that the stoker and combustion mechanics are good.
If you check it all out and nothing looks wrong, give us a call at 315-299-3589 and we'll try to do some more troubleshooting to figure out what the problem is.