Hi Mark,
Adding to what Mr.Moo advised, (above) you can also use shank brushes (like bristle cleaners). I just ordered 5 ($4.99) from P&C but I've gotten them elsewhere too.
To really clean the inside of the stem, (draught hole) I've found that a retort with the shank brushes does well. I've found that the retort works best on pipes that have been smoked recently. So now I retort a pipe when i get it, smoke it several times and then retort it again.
Pete