your emergency flasher is separate from your turn signal flasher. I would start by replaceing the turn signal flasher with a new heavy duty unit.
Then I would crawl under the truck and follow the wiring, you may have a bad ground in the back.
The reverse lights may be the ground, or they may be a bad reverse switch.
Also, if you have a bulb out the emergency flasher will still flash normally, however the turn signal flasher is not getting enough load to flash.