In ATK 11.2, nlprint(transmission_spectrum) will actually print out both spin components already for you.
If you want to do the exact same thing manually (good exercise), the object transmission_spectrum that is created via this command has several methods (see http://quantumwise.com/documents/manuals/latest/ReferenceManual/index.html/ref.transmissionspectrum.html) one of which is .transmission(). This returns a list of the spin up and down spectra, thus you could do
if processIsMaster():
energies = transmission_spectrum.energies()
T_up = transmission_spectrum.transmission()[0]
T_down = transmission_spectrum.transmission()[1]
for j in range(len(energies)):
print "%g\t%g\t%g" % (energies[j],T_up[j],T_down[j])
But you should check why you are not getting both components. Did you select a spin-polarized exchange-correlation functional (easy mistake!)?
Second question, try
print transmission_spectrum.conductance(spin=Spin.Up)
print transmission_spectrum.conductance(spin=Spin.Down)
(also "protected" by processIsMaster() of course!)