Thanks I'll make not of that, phoned another mechanic today explained that there was lots of air in the line, he said that the injector pump would have nothing to do with that. I'll be making an appointment to have it looked at. In the mean time if anyone else has any suggestions or experienc with this problem feel free to add.
They might have removed the check valve along with the water seperator,.. good idea to remove that instead of replacing it.
Ok well car is back from the shop the day I droped it off I had the same symptoms on start up and when I tried to drive the car at first. I limped through the rough running phase then it drove fine to the shop. I explained everything that I had been experiencing and left it over night at the shop to be looked at the next day. I get a phone call the next day from the mechanic telling me everything is working fine on the car? he can't get it to act funny at all. Now at this time I'm really confused he also mentioned that all the glow plugs were just fine which I was told from the other that I needed three new ones? I could explain why it wasn't acting funny on start up like it had been. Well I got a new fuel filter and replaced some lines that were questionable and the car has been running just fine ever since I picked it up. We did get to talking about a serious water leak that we have been having trouble with in the car, where water has been leaking almost directly on the fuse box under the dash during heavy rains. After mentioning this to the mechanic he said this could very well be what was causing the problem? something about interrupting the signal to the injection pump. Since then I have been tarping the hood and front window keeping it dry untill I can locate the leak and things seem to be running fine.
The rain gutter drains could also be plugged up.The air in the line after the repair could be unrelated to the repair. Old cars always seem to have multiple things go wrong at the same time, or one after the other. I have a theory that when you put a new part on a car, another part gets jealous and starts acting up, so you have to replace that one, and so on. I usually just try not to disturb the sensitive vw ecosystem under my hood.