I looked at another .mid file with program SysEx for the Roland JP8000 which also had 2 bytes before the Manufacture Id. In their case it was F0 81 7A 41, 41 for Roland ID. They also have a byte between SysEx blocks, in their case 20.
I opened the Cobalt.mid file in that Snoize program you mentioned Qwave and indeed it strips out the 2 bytes before the manufacture id. Unfortuantly with the midi-parser-js script you have to use your own function to parse SysEx so I will have to strip those two bytes out myself.