Absolutely! We show regular flights in addition to hidden-city flights. If you book a regular flight, you can check bags.
The only time we advise not to check bags is if you are utilizing a hidden-city itinerary. In those, since you would be exiting at a layover city, if you check bags, they will end up at the ticketed final destination.
To add checked bags for a regular flight, you will need to pay the additional charge by going to the airline's website or paying at the airport on the day of departure. The cost for checked bags will depend on your ticket and the airline.