A couple of points...
JAR-OPS is a minimum standard for operating procedures for specific types of aircraft operation. PANS-OPS is, in this case, a design standard. There is no reason that an operating procedure should not demand a greater margin of safety - or whatever - than the design standard provides.
Also, surely the definitive documents for approach plates is the State AIP. In theory Jepps and Navtech should simply reproduce the AIP - but sometimes don't!