Pixhawk Altitude Sensing Problem

I have been having a strange problem with altitude sensing on pixhawk. Today I tried going auto on FX79 buffalo, when the plane just wanted to come down nose diving. I had set waypoint altitude as 100m, yet it was acting weird.

So, I came back home and tried a simple check. I calibrated level on ground and went 3 floors up and checked the altitude. It was displaying 0 !.

Also whats the altitude units (feet / meters) on HUD. And what is the units of altitude we input in flight planner ( waypoint setting ) page?

Any idea why this is happening?

Also a few days back I was getting an error message - Bad Baro. But there was no errors/warnings today. 

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