I vaguely remember reading this when I was a kid. It was probably around the same section as the Frank Peretti 'Cooper Kids' series. It would have been a series of 'Christian' teen novels.
My recollection was that the main character was a boy around 13. His father had some shiny device that, when he touched it(?), he was able to be transported into this virtual reality. He meets a girl in there, I remember they described her eyes as blue or green with "gold flecks".
The lesson of the stories was basically that God can intervene even in the split nanoseconds of processing of the [computer] running the VR to save the boy.
The books would have been published around the mid/late 1990s. I've searched and searched but can't seem to find it.