When I changed my fork oil I put in stock length progressive springs, which give more suspension travel, a better ride, and better handling. I also put on progressive shocks, stock length, for WAY better handling and ride.
I've ridden many a lowered Intruder, and I don't like them much. They bottom out more easily, significant because I'm 6 foot, 230. I also ride very aggresively in the mountains, and the lowered bikes touch down too soon when you lay into a corner. I actually use stock length progressive heavy duty shocks on the stiffest setting, so my bike sits 1/4 inch higher than stock.
If you just ride around town, don't put a passenger or heavy pack on the back, and don't scrape the pegs in the twisties, you can get away with lowering the back an inch to an inch and a half. Any lower than that and on bumps the passenger peg mounts will hit the swingarm.
A good place to get shocks is
MAW Online. Last time I checked they had progressive shocks for $189. The stock shocks are 12.5 inches, so 11.5 is fine, but if you get 11 inch be prepared for quite a bit of bottoming out. I much prefer the heavy duty ones. Here are the part numbers so you can locate what you want on their site:
Standard springs:
412-4233C 11"
412-4201C 11.5"
412-4228C 12"
412-4207C 12.5" (stock length)
Heavy Duty springs:
(no heavy duty 11-inch)
412-4236C 11.5"
412-4238C 12"
412-4214C 12.5" (stock length)
Lowering the front causes a greater loss of cornering clearance, as that peg bracket will hit sooner, but again, it is OK if you don't ride agressively in the twisties.