Sorry you've run into some trouble. Let's see if we can help.
First of all, if you think the coal is burning too close to the back of the grate, when it is not lit and is cool, make sure the grate is completely seated on the grate holder. Also make sure the rope gasket that was supplied with the stove's grate assembly is installed on the back edge of the grate (if it is missing install it, if you don't have it contact your stove dealer or Leisure Line to get it). Sometimes you need to tap (lightly should be all it takes) on the back of the grate to make sure it seats fully to the channel on the bottom side of the grate. Use a rubber mallet or lay a block of wood on the grate and use a regular hammer, don't hit it with a metal hammer directly.
That all said, it is normal for the back edge of the fire to be roughly in line with the back wall of the stove. If you were to look at the grate, the fire will extend maybe 1/2" to 1" back from the last line of air holes. You should still be able to see the unburned coal at the very back. If it is burning so far back that you can't see the coal entering the burn chamber, then you do have a problem and should shutdown and investigate, calling your stove dealer or Leisure Line for assistance.
Next, we recommend you set your thermostat to a temperature below room temperature in preparation for starting the stove. Ideally you can have it set 5 degrees or more below room temp for an hour or more before trying to light it. This will allow the control to ramp down the FR and hopefully avoid a massive overshoot which is likely to occur if the control has been left with a setpoint above room temp for an extended period of time before lighting. In a pinch you can set the thermostat to a temp below room temp, then go to the MIN screen in the SETUP menu. While on this screen the control will continue to run the temperature control logic, but the output to the stoker will be overridden to run it at MIN rate. You can leave it on MIN for 60 minutes or so, and then move it back to the round robin display so normal temperature control can take over. This way you don't have to wait for it to ramp down the feedrate before lighting the stove. Once back on the round robin display you can adjust setpoint to where you like it, hopefully from a FR or 0 (or something close to it).
Lastly, since the temperatures outside are still relatively mild, you may want to dial your MAX setting back to around 25 or 30. When it gets consistently cold out or if you find the stove can't reach setpoint or has trouble maintaining setpoint, adjust to a higher MAX setting (no higher than 40 or 45 with a LL, unless you go through the custom MIN/MAX setting routine detailed in the user manual with your thermostat).
And really lastly...
If you have any further issues feel free to give us a call, 315-299-3589. Often times talking through things on the phone is much faster than dealing through email or the forum. But you can respond back here, too. And there is a wealth of information available in these forums on the use and setup of a Coal-trol equipped stove.