Absent legal restrictions, the GOP will want to make CD-03 a couple of percent more GOP if it can.
I'm not sure it can be done without marginalizing CD-2. McCain's percentage in the whole counties of the proposed CD-2 is 52.17%, compared to 49.51% in Wyandotte and Johnson Counties (a slight plurality). In 2004, Bush received 56.75% in the whole counties of the proposed CD-2, compared to 56.40% in Wyandotte and Johnson Counties. Republicans should be safe in both districts
most of the time, but short of putting Topeka and Lawrence in CD-1 I wouldn't try too hard to make CD-3 a Republican stronghold. But then you end up with the very ugly shapes that the OP was trying to avoid.