CYBLE-416045-02 module internally uses PSoC 6 BLE device only. Along with PSoC 6 BLE device, it has some additional components.
You can use Miniprog 4/Kitprog 3 to program the device using SWD protocol in PSoC Creator. If you are using Modus/any other third party IDEs like Keil or IAR, you can use J-Link also (along with Kitprog 3/Miniprog 4).
Please refer psoc 6 programming specifications appnote for more information.