Try removing the alarm fuse.

 

I’ve got vague memory of someone over at the element forum having his car keep locking on its own. It turned out to be his lock knob switch circuit.

 

Please post the solution if you find it. My '06 locks itself about once every two years, it never became more frequent, so I haven't put the time into chasing the issue down. I always carry a second, blank key with me, that can only unlock the door ( no transponder ). The last time it happened, my CRV was running, in the street, late at night, 20 degrees outside and my other key was miles away.

 

Sorry for the delay. The 2006 Honda CR-V finally made it back to our place where I could do some more testing. I tried removing the following fuses one at a time: underhood fuses F3, F5 and F9, and underdash fuse F10 (handy online diagram found here: Fuse box diagram Honda CR-V 2002-2006). The only one that made a difference was the underhood F9 fuse. When removed, the buttons on the key fob wouldn't work, but the key itself, when inserted, unlocked and locked the driver's door normally.

Sadly I didn't try removing the alarm fuse as suggested by bradleydavidgood777 but will try that next.

 

Perhaps these links will help you out. The charm.li website hosts a catalog of the same Honda service manual information that the dealership techs use to fix cars. it’s free for model years 2012 and older. There is a lot more info there, I just pulled out a few links that I saw that could be applicable to your problem.

Keyless/Power Door Lock System Circuit Diagram — 2006 Honda CR-V 2WD L4-2.4L Service Manual | Operation CHARM

Detailed repair manual for the 2006 Honda CR-V 2WD L4-2.4L.

charm.li

Door Lock Knob Switch Test — 2006 Honda CR-V 2WD L4-2.4L Service Manual | Operation CHARM

Detailed repair manual for the 2006 Honda CR-V 2WD L4-2.4L.

charm.li

Door Lock Switch Test — 2006 Honda CR-V 2WD L4-2.4L Service Manual | Operation CHARM

Detailed repair manual for the 2006 Honda CR-V 2WD L4-2.4L.

charm.li

Power Door Lock Control Module: Testing and Inspection — 2006 Honda CR-V 2WD L4-2.4L Service Manual | Operation CHARM

Detailed repair manual for the 2006 Honda CR-V 2WD L4-2.4L.

charm.li

 

If you live in the U.S. it's getting warmer and this means more moisture in the air. Try this: Use a dispersant to get that electricity attracting & conducting water out of there. WD-40, damp rid, warm garage, sunlight, wind. Lubricate metal on metal with white lithium grease spray & use the nozzle straw in the lock after the WD-40. Silicone spray is for window jams (clean first with air compressor), moldings, and other rubber parts. A little goes a long way.