When I cold start my manual 5 speed 1998 VW Beetle 2.0 in the morning, the car will stall when I put the car into gear. It does this until I push the gas a few times and warm up the engine

Is the orange rod bush ok?

Resecure loose wire or connectors - If battery charge is low, recharge or replaced battery - Replaced crank position sensor - Replaced starter motor

I’m happy to assist further over the phone at https://www.6ya.com/expert/brock_d67526d2a834c47e

First of all you should exit from 2 safe mode. Then turn ON the radio and let it turned ON for at least one hour, in order to exit from 2 safe mode.

IMPORTANT NOTE:
You must have the security anti-theft code for your VW radio from the car manufacturer, or from a VW dealer!

You can find the radio code at: http://www.radio-code.co.uk/

The sequence of VW radio programming is:
1. Push simultaneous "SCAN" and "RDS" keys until on the screen will appear "1000" displayed.
2. Release keys. No more push on "SCAN" and "RDS" keys because otherwise number "1000" will be considered as first safe code attempt.
For example: we have the security code "5079". Then:
3. By the no.# 1 key you will set up the first safe code digit. Push 5 times on the no.# 1 button. The "5" number will be setted.
4. By the no.# 2 key you will set up the second safe code digit. Push 10 times on the no.# 2 button. The "0" number will be setted.
5. By the no.# 3 key you will set up the third safe code digit. Push 7 times on the no.# 3 button. The "7" number will be setted.
6. By the no.# 4 key you will set up the four-th safe code digit. Push 9 times on the no.# 4 button. The "9" number will be setted.
7. Then push again simultaneous "SCAN" and "RDS" keys for confirm this safe code. On the screen will be displayed "SAFE" notice. Release keys! For few seconds a radio frequence will be displayed.
The radio is now ready for use!

without putting my machine on it and extracting the gas to see how much gas their is by weight then i couldnt even think of a reason for this sorry

Sounds like a possible throttle positioning sensor.

I have a 1998 and I just confronted the same problem. It seems to take like 1 gear in reserve and like 2 gear in 1 gear. Any thoughts? I don't really it should be the transmission since it still works going forward in 2 different gears. Thanks.

P0411 Secondary Air Injection System Incorrect Flow Detected
The 4mm inside diameter vaccuum hose gets pinched between the lower intake manifold and the secondary air pump housing, flattening it over time.
Here's a link to the steps to fix yourself if you are mechanically inclined...
http://forums.vwvortex.com/zerothread?id=1995162

P1128 Long Term Fuel Trim Is Too Lean
It is very likely this code is coming up because of the vacuum hose as well.

if its a linkage broke yes no doubt you can do it yourself

idle air control valve is going bad

Behind the battery where the cables connect there is a part called a carrier 1J0711256...less than $35@ vw dealership...easy to install...remove breather...take bottom cable loose...put part on