If these are pills we are talking about, you can carry them any way and any where you like. There are NO rules about pill-form medicines on domestic flights. (Except that if you were carrying *really* large numbers of controlled-substance tablets you might attract the attention of law enforcement, on suspicion of dealing. By really large numbers, I mean hundreds of pills of the same med.)
If you have liquids you need to keep them in their original bottles and "declare" them for TSA. I always put the bottles in a ziploc marked "medications" and put them next to my 3-1-1 toiletries baggie in the bin, makes things easier. (The medications baggie is not subject to a size limit, BTW, as it isn't required.)
One last note: NEVER, NEVER, NEVER check medications of any kind!! They are prime targets for theft, and you would miss doses if the bags were misrouted.