Does the second feeder wheel turn when it should? If yes, then it's rather a problem of proper priming.
I recommend you test the new extruder separately. Generate a gcode file for the one extruder and replace all instances of 'T0' you find in the file with 'T1'. If there is no 'T0', add a 'T1' before heating commands (M104, M109). Expand the heating commands with a 'T1', e.g. 'M109 T1 S210'.
Before trying a dual extrusion print, you should make sure that both extruder work properly on single prints.
Which Marlin version do you use? Default firmware bundled with Cura, generated with the marlinbuilder or self-compiled?
What's your setting for the gcode flavour setting in the machine settings of Cura?