As of V9 all of the design rules are shared between Logic and Layout. I haven't gone into detail on setting these yet, but I do know that a warning dialog pops up when you ECO from Logic to Layout that the vias defined in Logic must be present in Layout. While there may be an easier way, I'd start with setting yoru design rules in Layout and then 'ECO from PCB' to load the rules into Logic.
In the 'PADS Layout Link' dialog box (<Tools><Pads Layout...> on the Design tab there are checkboxes for 'Include Design Rules in Net list' and 'Compare Design Rules' so you can pass the rules back and forth between Logic and Layout.
FYI In 9.0 if you have the units in mils in the schematic and send the rules to Layout (if you check the box in the Layout Linik to include rules), and the if the Layout is in metric.... you will create a problem in the database because it will not properly interpret the units. This is cleared up in 9.2 (I dunno about 9.1).
Just a little heads-up from your Uncle George