Trouble with switches in RW3

I have an .RAR file of the route I was expanding on (The Barstow-San Bernadino Route) which had fine looking switches, and switch stands, all saved to one side on my desktop before RW3 came along.
After finally successfully having RW3 installed, I naturally installed my .RAR file of the route. And when I opened it, almost all of my switches were defective, with the dreaded "red line rectangle" on every occasion, the switches having no frogs or moving points. Some of them, including those good switches that remained, have no switch stands! Now remember, these switches were fine in RW2.
Also, I did have to realign some of my rail heights, that were somehow changed when ported over to RW3. What do I do now?
Interestingly, the original switches in the original Route that came with Railworks are fine; it is only the switches I installed in my route expansion that were affected.
What the heck is going on????????????????
After finally successfully having RW3 installed, I naturally installed my .RAR file of the route. And when I opened it, almost all of my switches were defective, with the dreaded "red line rectangle" on every occasion, the switches having no frogs or moving points. Some of them, including those good switches that remained, have no switch stands! Now remember, these switches were fine in RW2.
Also, I did have to realign some of my rail heights, that were somehow changed when ported over to RW3. What do I do now?
Interestingly, the original switches in the original Route that came with Railworks are fine; it is only the switches I installed in my route expansion that were affected.
What the heck is going on????????????????