"Can two sample water lines be connected to the same analyzer?"

Kuntze analyzers do not support more than one sample line into the analyzer. This is a common question, but the reasoning is explained here:
 
All amperometric chlorine measurements use the same fundamental principles to build the measurement. At Kuntze, we pay special attention to temperature and pH when making a free chlorine measurement.  This requires a multi channel instrument that accepts multiple sensors, BUT the sensors are all intended to be on the same sample line of water.  See also What does the Zirkon® DIS Free Chlorine sensor measure?
 
Two separate chlorine measurements requires two separate Krypton® Multi analyzers.
 
One often overlooked safety feature is the flow switch.  Without flow, there is no amperometric chlorine measurement. Kuntze analyzers are equipped with 1 flow switch, 1 pH input, and 1 temperature input so only 1 chlorine sample line can be used  per instrument.
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