Hello and welcome! I have a bad knee and have had knee surgery. For me it has been very important to make sure my bike is adjusted correctly. Also keeping the gears adjusted to an easier to pedal gear like the previous poster mentioned is important too. I noticed my knees bother me a bit more since I got clipless pedals/shoes. I also go slow and steady up hills instead of trying to power up them fast and that helps my knees. I live in an area that is very hilly so I have to be careful. I plan on getting a professional fitting soon at a bike shop to make sure everything is adjusted at an optimum level for my body. It's spendy but it's worth it to save my joints.
I'm a total newbie when it comes to bicycling, and so I've been dong a lot of reading. (Newbie + books on cycling = lots of stuff about which to be clueless). One thing I learned is that there are 'mashers' and 'spinners' -- people who like to give their legs a serious workout by being in the highest possible gear they can pedal, and others who keep a nice steady rotation going on the pedals in whatever gear allows them to do that. If your bike has multiple gears, a lower gear may help your knees out. I think of spinning as cardio training, and mashing is strength training.
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Suggestion re: knees. Take your bike to a local bike shop and double-check that the bike is properly adjusted to your body. Saddle height and other variables can make a big difference to your joint comfort. Pick their brains at the LBS and see what they might suggest.
Another variable might be the terrain in which you cycle. Hills may be hammering your knees too much right now.
Most of all though, keep getting on the bike and loving it!
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