I run a 14' aluminum with a 9.9 and a 36lb transom mount.
There is no question that a bow mount with a foot control is more convenient. But the way my boat is set up, the transom mount works fantastic. I sit in the captains chair, can run the motor, fish finder and rod holder all looking in the same direction. Great slow trolling rig for walleye.
The downsides of transom mount on a small boat... If you don't lift your main motor, and try to run the trolling motor, you end up with a serated prop really quick. And if you have the electric set to low in the water, the handle on the electric hits the main motor, and limits how much you can turn. A bit of a pain in the but at times.
And definitally go stonger then 36lb.. It's not enough in strong wind.