Its up to you, you could also just get the CD key from Steam (right click on STO->Manage Game Account) and keep using your beta client.
Actually it was right click ST:O beta -> properties -> general and click the Visit Star Trek etc. button. A new tab in your browser goes to the ST:O site and the key is already filled in. The pre-order is added to my account now, although it didn't specify it as the Digital Deluxe edition.