They finished top of Group B, and will join their neighbours South Africa in Group 2 of the Super 12s.
The duo shared a 119-run stand in chase of 177 to produce a come-from-behind win; Jones' 86 in vain for Scotland.
All-round Scotland cause massive upset, defeat West Indies by 42 runs.
Scotland will take on the West Indies in their opening match of the tournament at the Bellerive Oval in Hobart on October 17.
New Zealand plundered their best T20I total - including 18 sixes - and crushed Scotland by 102 runs.
Pakistan beat Scotland by 72 runs in fifth straight win to set up.