In Motion Dock, enter Edit layout, select Lineup, and click Module settings in the top bar. You can also double-click its slot in layout mode or right-click it and choose Module settings.

Settings save as you change them and carry across projects. Return to the tool before running an action. If the preview has not updated, move the pointer out and back in.

These are Lineup's two sort settings. Modifier clicks override them once without changing the saved values.

SettingDefaultBehavior
DescendingOffRuns the six directional sorts high to low. The main panel’s direction icon changes this same setting. Shift-click uses the opposite direction once. Reverse and Shuffle are unaffected.
Distance FromFirst selected layerChooses First selected layer or Comp center as the distance origin. Alt/Option-click Distance uses the other origin once.

Lineup also saves its last successful shuffle seed. It is shown on Shuffle when space allows and reused with Alt/Option-click. It has no settings field. See shuffle repeatability for the limits of reusing it.