Bob,
#1 No need for a fuse between panel & controller on land this is a requirement because you are running 100+V arrays and is an NEC requirement. On a boat you can short the panels into the wire all day long and not cause an issue as the wire should be sufficiently sized to handle the entire current of the panel. It is a wasted fuse that only adds more voltage drop to the system.
#2 There must be a fuse close to the batteries to prevent short circuits at the "source" end . Batteries are always the "source" for over current protection. This fuse is always sized towards the max ampacity of the wire. Running a smaller fuse than wire ampacity results in unnecessary voltage drop.
#3 The Rogue is a super high quality MPPT controller and built to the highest possible standards. It comes standard with features that cost extra with the other guys including STANDARD battery temp sensing.. Please take the time to read this link before making a choice:
http://www.roguepowertech.com/documents/RogueDifference.pdf