I believe the only way to get a stick shift tranny in a 3/4 or 1T pickup is to go with a Dodge diesel.
That is correct for any half ton or greater. I'm tempted to say the last manual, gas engine 250/350's were 2007.
My last truck was a 2010 Ram 2500 diesel with the 6 speed. Had to have it shipped up from the midwest to CT as there wasn't a single manual transmission in my desired configuration (nothing fancy!) on a dealer lot any closer.
Although I must say, now that I have an auto (2013 F150 ecoboost) I don't miss the manual much in my 30-40k mi/year I drive.