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^^^^^^^^^ What Peter said.
If you don't get any joy or it's too fiddly for you, another way of achieving perfectly flat trench or mortise bottoms is to use the 'moving plunge' trick. Set the plunge depth to around 2mm (1/16") above where you finally want it. Then release the plunge lock, and start at the workpiece surface using as many passes as appropriate to get the entire trench dug out. You'll end up with a trench which needs another 2mm shaving off the bottom.
Once you've done that - set your plunge depth to its final setting. Loosen the plunge lock to raise the bit slightly just so that it's hovering 1-2mm above the existing 'not-quite-deep-enough-yet' trench depth. Then plunge the router to its final depth and lock it whilst moving the router forwards through the cut. The absolute key to this is to plunge fairly gradually whilst the machine's moving forwards, so the bit enters the '2mm-too-high' section at a shallow angle rather than it dropping like a stone. Ideally, you want to be at full depth by the time you're no more than 60-70mm away from the beginning of the cut. Cut all the way to the end, and then whilst still at full plunge, draw the router backwards all the way down the cut to take out the remaining 60-70mm unshaved section at the beginning. Go slower when you're doing this last part. Although backwards routing obviously isn't usually a good idea - in this case you're only shaving off a tiny amount over a very short distance. Sounds complicated, but it's quick and easy to do.
That fixes it.
Kevin