4.5.1 One Click Programming - Program and Run
This will build the solution (if any changes are made) and program the target device without starting a debug session.
Start without Debugging uses the tool and interface settings specified in the project options. This is different from what takes place when using the stand-alone Programming Dialog, which is not related to the project at all.
The Start Without Debugging command will also program the EEPROM, fuses, lock bits, and user signature (XMEGA only) segments if they are present in the object file. The GCC compiler can generate ELF object format files with such segments. See Creating ELF Files with Other Memory Types for more information.