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You need a diagnostic tool to open the programming process so the computer can recognize both key codes as good keys. Then it can start. There is not a way to bypass this. Call your local locksmiths to see if they have this programming tool and can come to you.
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If the theft light is on or flashing after the key has been in the run position then the PATS system has triggered.
The transceiver module communicates with the encoded ignition key. This module is located behind the steering column shroud, and contains an antenna connected to a small electronics module. During each vehicle start sequence, the transceiver module reads the encoded ignition key identification code and sends the data to the PATS module.
The control functions are contained in the PATS module. This module performs all of the PATS functions such as receiving the identification code from the encoded ignition key and controlling engine enable. The PATS module initiates the key interrogation sequence when the vehicle ignition switch is turned to RUN or START.
PATS uses the p owertrain control module (PCM) to enable or disable the engine. The PATS module communicates with the PCM over the SCP communication network in order to enable engine operation. The PATS module and the PCM use sophisticated messages in order to prevent a theft. The PATS and the PCM share security data when first installed together, making them a matched pair. After this security data sharing, these modules will not function in other vehicles. The PCM shared security ID is remembered even if the battery is disconnected. The PATS module also stores the vehicle's key identification code, even if the battery is disconnected. There are special diagnostic repair procedures outlined in this workshop manual that may be carried out if either the PATS module or the PCM needs replacement.
You can buy a diagnostic tool that can be used to diagnose your vehicles as well as program keys to a vehicle for under 600$