Jones was driven from the pitch at the Aviva Stadium in a medical cart in the 71st minute after falling awkwardly while attempting to catch a high ball.
An MRI scan undertaken revealed damage to one of the stabilising ligaments in his foot, requiring six weeks of immobilisation.
The development means Jones, who was making his full Test debut on Saturday, is no longer under consideration for Ireland's 30-man squad for the World Cup, which is named on Monday lunchtime.
The 24-year-old Munster full-back had played his way into contention for New Zealand, though his lack of experience counted against him.
"The squad and management are bitterly disappointed for Felix to suffer an injury at such a vital time in terms of selection for the final touring party," said manager Paul McNaughton. "He had certainly put himself into contention during pre-season and the games in the last three weeks.
"We all wish him a speedy recovery and that he is back playing as soon as possible."
Jones was an option to supply back up to first choice full-back Rob Kearney at the World Cup, but coach Declan Kidney may now be forced to rejig his plans.
Kidney is unlikely to turn to Geordan Murphy after he was picked to play against Connacht in midweek, so it appears as though Luke Fitzgerald or Keith Earls will be asked to fill the role.
Gilbert has released a new line of rugby cleats. The Gilbert Virtuo 8S is part of the exciting new product. Check it out.
The entire All Blacks apparel line has been updated for 2013/14. Check out the New Zealand All Blacks polo.
The Nike Tiempo is a solid rugby cleat and one of few styles still made from full-grain natural leather.
The Gilbert Blitz 8S rugby cleat is a great cleat at a great price of $69.99. Get a new pair of cleats today.
A cool looking all black rugby cleat with the high performance adidas is known for. Get in the Gear!
Wear the crest of the British and Irish Lions on your t-shirt. A great look for the summer.
The All Blacks Performance t-shirt is black with hints of blue from the training jersey. Very Cool.
The New Zealand All Blacks training jersey for 2013/14. Get in the Gear!
The USA Rugby Pro Alternate rugby jersey is perfect for any fan of the Eagles. Get yours to wear during the summer Test matches.
The NEW All Blacks 2013/14 jersey has arrived at World Rugby Shop. Dare to wear the colors of the All Blacks.