The Kolmogorov-Smirnov test is available under the Fit Y by X Platform. The Statistics Index provides an example
Help==>Statistics Index==>Kolmogorov-Smirnov
JMP allows you to read data in from either Excel or txt files. The format for the data needs to be in 2 columns. One that contains the measurement data, and a second column which shows which of the 2 groups you are testing, each data value goes with. See the example below
sex age
Male 36
Male 23
Male 29
Male 39
Male 34
Female 42
Female 40
Male 28
Jim