I'm assuming you're taking about pain underneath the kneecap?
You can't take ibuprofen or shouldn't take it? I take blood pressure medication and hence shouldn't take it (and I might add that I hate taking any medication for anything!) but for me, with just a few (say just 2 in the morning and 2 later in the day) for just one day is enough. The little I know about anti-inflams is to avoid taking last thing at night as that will aggravate stomach ulcers -perhaps speak to your doctor.
Alternateively (or in addition to) - ice, ice, ice - an ice pack or even a pack of frozen peas. Just say 2 minutes at a time on each area (try below the knee cap, either side of the knee cap, and directly on top of the knee cap) - 2 mins x 2 or 3 times on each spot - acouple of times a day if you can.
Whilst the bike may not aggravate the injury, it may be preventing it from improving. As hard as it is (and I'm assuming your from UK/Europe so with the little good weather you have it'll be hard to take a break from cycling/running) - have a couple of weeks off - try some swimming (I hate swimming but it will at least keep you moving).
Hope the above helps.
Damien (Australia)