There may have been ligament/tissue damage to your foot which wouldn't have shown up in an xray. Did you ice the foot after the injury?
Even if you did have deep bruising, it should not be there 3 months later. If the foot was injured you may have scar tissue present which will cause pain. My advice would be to try & get an MRI scan to see if you have had ligament injury or see a physiotherapist.
If you can jog pain free I can't see why you should stop doing this, if the pain does flare up stop.
[COLOR="Blue"][FONT="Arial"][I][SIZE="2"]You get what you settle for in life![/SIZE][/I][/FONT][/COLOR]