@Mitchell48
My solution is using "Download code after build" option in MCU configuration block, but it works only once. Therefore, I use following steps:
1. Flash MCU via Multilink (any image)
2. Generate and build new code which uses flexcan by Simulink and MBDT with "Download code after build" setting
3. Before next build with flexcan flash MCU via Multilink
OR
To use Multilink for all test builds and use "Download code after build" option for release version.