This was done to death on the XS650 Garage about a year or so ago.
As a design exercise its fun but for practical purposes (to get more power) pretty much a waste of time.
You would be far better off making cold air intakes for stock air box
The benefits of 'Ram Air' are less than negligible until you get over 100mph and no positive pressure is generated until 140+. (I think Kawasaki published numbers of about +2psi @180 mph, and that was an engine designed around a ram air system with fuel injection) Just work out how much air moves through the motor at redline with only 80% V.E. (CB550, around 20 liters per min @10,000rpm if my math is even close?)
Plus, as previously mentioned, the exhaust side is around 250~300 degrees hotter than intake so the thermal gradient will be even higher with head reversed which will probably lead to blown head gaskets and distorted cylinders/heads (Cannondale almost went bankrupt trying to sort out problems with their engine)
The stock Honda motor wasn't high tech in the mid 70's so can be improved, without fuel injection and a powerful lot of electronics its going to be a nightmare (probably a nightmare anyway?)
PJ