If you have a conjunctival cyst, the best thing you can do is avoid irritating it further -- that means no eye rubbing or poking at it try to get it to pop. As you blink, you may feel the cyst under your eyelid, creating an uncomfortable irritation. Over the counter artificial tears can help improve comfort, but until the cyst is gone, the irritation of it rubbing against your lid will persist.
How to Treat
You can try just using artificial tears and wait for the cyst to go away on its own, but sometimes a doctor's intervention can speed the process up quite a bit. Your eye care provider is going to check carefully to make sure nothing is trapped in the eye or eyelid that could be rubbing the area. A little speck of dirt or debris could be your culprit. I have found that steroids (drops or ointments) can help decrease the size of the cyst, but they don't work with every patient. For large, persistent cysts sometimes the only treatment is to get the cyst drained. The procedure is painless (a topical anesthetic is used), but you may get a little bleeding due to the surrounding blood vessels in the conjunctival tissue.