Unless you have a genuine VW version of the Eberspacher (the ECU in the heater is unique to VW) and ALL of the wiring looms that belong with it for the same year as your vehicle plus the ability to vehicle have it coded to your vehicle I would suggest that it's not worth trying.
My choice would be to install a standard Eberspacher probably a D2 Airtronic fitted with compatible Eberspacher control (modulator). This I would fit in the normal VW location either on genuine VW mountings or the readily available after market ones and 'plumb' it in in all aspects, fuel, combustion and heating air plus electrics to your satisfaction. Original looks can de attained if you so wish, there are threads on this forum which will explain all of the options. Most of the facilities of the VW control are available with Eberspacher modulators including timer, thermostatic and remote control plus the option of unheated air circulation (not offered with the VW controls).