Sell them both ways, apart and in a bundle. Keep the price of the bundle lower than the sum of all parts and somehow link to the parts from the bundle. This will show the user that hes getting a good deal.
Personally, I prefer flat dollar prices. I'm much happier with $25.00/mo as opposed to $24.95 or $24.99/mo. I read them all as "$25" anyway and I prefer nice round numbers.
ymmv.
In my case I would go with a flat price ($1 or $2) or perhaps a flat price with a little more like $1.20 or $2.40. This seems like it isn't a random price.