Its amazing, this thread, and I hope I am not too late in 'getting in' is almost precisely what has happened to me. Its a little frustrating that there isn't any 'answer' in the thread, but never mind.
I have the same controller, in France. I have no external management, i.e. no thermostat or external temp probe, so all is dependent on the boiler, each rad has a theormostatic valve. I have the installation since 2001 and no problem. However, this year, i.e. since October or so when I turned it on to both heating and water, it has, from time to time, started doing what was described above, the pump staying on. I tried the 'old trick' of resetting by turning the whole thing off for a while and it seemed to have cured the prob. The last few weeks the outside temp has been low (below the 3C set) but just these last days (in contrast to the rest of Europe) the temp has been >5C all the time. But just yesterday I was supposed to be going away for a few days and set it to standby and noticed the pump continued to run.... My flight was cancelled and when I got back here the pump was still running, but rads were cold. I turned the power off for 5 mins or so before starting it again and it seems to be sort of working, pump is on and off, but not following any pattern, that I can see.
The other weird thing, I just looked and it seems the hot water management has reset itself. I have it programmed for half hour at 06.00 and another hour at 15.30, having changed that from 16.30 last year. Now it is back to 16.30???? The central heating which runs 06.30 to 22.00 is as it was.
Confused!!