Exploration Cards:

The (OK) button
When you see an Exploration Card with an OK button, this means the script knows how to handle the card. You should click (OK) after reading it. The script will perform the action(s) on the card and discard.

The (x) Discard Button
When an Exploration Card has only a Discard button (x), this means the script will not handle the card. You should read and execute the Card, then click the (x) when you are done.

Diplomacy Cards Yes/No
Cards with Diplomacy tests will ask if your Diplomacy attempt was successful. When you encounter this prompt, you should roll a die and add your Ascendancy. If your roll result (plus the ascendancy) is higher than the Diplomacy value (number at the top right of the card in a green circle), you succeeded and should click YES. Otherwise click No.
The game will automatically pass these cards when required to. It will also discard them according to their rules. (Some discard to the bottom of the Deck, others get shuffled back into the deck).
Some Ally cards have a choice of which resource to generate. Click the button inbetween the resources to toggle which resource it will produce during Recharge. The Rigellions give a choice between 1 Production or 1 Research. The button will point left or right and display Red or Blue depending upon what you want. You can change it back and forth, it only matters what it is set to right when the Recharge Stage fires.

The (RiP) button: Remains in Play
A few cards are marked with "Remains in Play". These have the (RiP) button. Clicking (RiP) will shrink the card and place it over the Planet. The reason for the smaller card is so it doesn't obscure the System Disc as much. Once in their smaller form, these cards will have the (x) Discard button for when the card is completed. Discard will resize the card back to normal while discarding.

The Planet Eater
This card will prompt you to destroy the system it last touched.

If you have trouble with an Exploration card, you can usually reset it by placing it back on top of the Exploration Deck, the re-drawing it. Placing the card onto a System Disc tells the card which System it was drawn for. If you draw it manually, you should always drop it onto the System it is for. Be careful not to let it touch more than 1 system at a time, or it may get confused as to which System it is intended for.