And here I lost the trace... how can I clean the BootROM,
BootROM reconstruction is not an end user process unless you are a firmware engineer - it's a service. If you need it, PM me.
or where can I take a cleaned BootROM? And what are the steps to flash it into my MacPro's NVRAM?
There is no cleaned BootROM that fits all Mac Pros - each Mac Pro BootROM image is unique and you can't use a BootROM image from one Mac on another.
You gonna dump your MacPro BootROM image following the instructions, get yours reconstructed, then do a very similar process as you did the dumping to flash the reconstructed never booted BootROM image back to your Mac Pro.
OK, I guess not to need this, since I'm on 144.0.0.0.0 (on my 2009 MacPro updated to 5,1)
The early-2009 cross-flashing process to MP5,1 don't make a MP4,1 BootROM image fully MP5,1. Just the EFI part of it and all the other components of the BootROM image are still MP4,1 (Edit: nitpicking, the x86 Reset Vector is also changed to work with the MP51 EFI). That's why a cross-flashed early-2009 is called MP4,1>5,1 or hybrid.
MP4,1 NVRAM volume when used with a MP5,1 EFI is extremely susceptible of corruption, specially if your early-2009 from factory had an EFI older than MP41.0081.B07 (all early-2009s made before late November/early December 2009), that's why you see so much early-2009s bricking.
Early-2009 Mac Pros with earlier BootROMs have several similarities with early-2008s that mid-2010/mid-2012s don't have. For example these earlier MacPro4,1s also have the same area inside the NVRAM volume (the FTW store at offset 0x140000) that stores a log for each NVRAM reset/forced garbage collection, exactly like a MacPro3,1 do. Apple probably removed it from later firmwares to try to reduce the NAND cell wear of the SPI flash.