Hi felipegsoto !
You means that external pins is fully initialized at once as well ?
For example UART can initialize peripheral and RX line only. When activity is detected, TX line can be attached to UART peripheral as well.
For us is important how external GPIO line configurations changing during ISP active scan.
Also ROM is not cleaning Clock tree and Power domains when it jump to application.
Flexcomm clocks remains attached and USB powerdomains remain enabled.
I think it is not so good. ROM in Secure MCU should leave clean landscape.
I haven't find out also why USB RAM is wiped to 0x00 after reboot.
May be it is cleaned as well.
Regards,Eugene