Depending on the feedback system you use, you might want to initialize the axis position with retain data. If the IPC (e.g. CX2) has NOV-RAM, you can follow these steps to configure 'retain data' for the axis :

Set 'Data Persistence' to TRUE for the axis 

Then activate configuration after selecting 'Load (if available) / Store' in the NC SAF task settings 

Activate configuration again after selecting 'Load / Store' in the NC SAF task settings 

Since there is no data to load initially, you activate the configuration twice with the selections mentioned above.

Also, you need to make sure using proper function blocks and a UPS for successful data retain before TwinCAT shutdown.