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This will work if you use the Tachyon viewer (I don't know why it doesn't work with the jMol viewer).

For example, the following results in 3 spheres which are different shades of red:

for a in [0,.3,.5]:
    grr=sphere(color=Color(a,0,0))
    grr.show(viewer='tachyon')

This will work if you use the Tachyon viewer (I don't know why it doesn't work with the jMol viewer).

For example, the following results in 3 spheres which are different shades of red:

for a in [0,.3,.5]:
    grr=sphere(color=Color(a,0,0))
    grr.show(viewer='tachyon')

Note that if you run the loop from the sage: command prompt rather than the notebook, you can get separate jMol 3D plots -- separate viewer applet is opened for each plot. So this is a notebook bug I guess.