Not really a bad idea. The best way to get wax to absorb deep into your base is and always has been a "hot box" which is usually set at around 121 degrees farenheit. Too much heat will ruin your board but if you can keep the temperature at 130 degrees or less no problem.
This is the MOST effective way to prepare and wax your board. As far as longevity, no wax job lasts as long. The pores in the base stay "open" for a few hours as opposed to the five minutes you are waxing with an iron. The best technique is to iron wax the board, leaving A LOT of extra wax on the base. While the board is still hot from the iron place the board in the hot box and let that stuff "soak in." After a few hours most if not all of the wax will be absorbed into the base. The next step is to simply put a light, condition specific, wax on top and scrape.