For long term storage with crown corks (aka: caps), you want to keep the bottle upright, this prevents the content from damaging the seal on the cap.

If you are doing long term storage with corks, you want the bottle to be left on its side, or a slight angle, ensuring that the cork is kept moistened by the contents, this prevents the cork drying out and hence prevents oxidation.

Waxing doesn't add much except for style points providing that the cap is on correctly. 

See this answer for a more indepth look at long term storage: https://homebrew.stackexchange.com/questions/814/how-to-store-beer