No. It is not possible to disable the logical tests in the firmware. If soil conditions cause frequent NAN values, it may be possible to perform a soil-specific calibration that will provide good results.
If permittivity is reported but the volumetric water content value is NAN, Campbell Scientific recommends a soil-specific calibration that converts permittivity to water content. This will take advantage of the bulk electrical conductivity correction that occurs in the firmware.
If both permittivity and volumetric water content have NAN values, it may be possible to perform a calibration that converts period average directly to volumetric water content.
For details on performing a soil-specific calibration, refer to “The Water Content Reflectometer Method for Measuring Volumetric Water Content” section in the CS650/CS655 manual. After a soil-specific equation is determined, it may be programmed into the datalogger program or used in a spreadsheet to calculate the soil water content.