I did it with the magnet, but the device does not turn on@Filisteus Assuming your flashcart was flashed properly with ntrboot, you should be able to follow this guide to install B9S to your 3DS: https://3ds.hacks.guide/installing-boot9strap-(ntrboot)
What's on the R4's SD card is irrelevant. What matters is what's on the SD card in your 3DS. Just follow the above guide exactly.
Getting ntrboot to work can be tricky with the magnet. It's going to probably take you a few tries at least.