Be sure to check what kind of customer support you can expect from your affiliate program once you have signed up. Do your research online and if possible, speak to other sellers using the program to get their thoughts. Can you speak to someone via phone or Skype or do you have to wait 72 hours for email responses? Be clear on this because trust me, you will need support at one point or another.
Always disclose your affiliate relationship. Most visitors will probably understand that graphic ads will lead to your getting paid, but if you write a review or use an in-text link as a recommendation, you want your readers to know that may lead to compensation as well. This ensures you retain transparency and trust with your readers, but also, it's required by the FTC's endorsement rules.