You ran the EGR system wide open with no cooling and that's why your intake discolored. Just remove the vacuum hose from the EGR and don't use it - unless you have emissions tests to clear. Then you'll have to do an involved retrofit including supplying coolant flow to the EGR spacer and getting the electrical valves that control the vacuum to the EGR valve.
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Tom (Torque) Moss
88Gt 5spd Vert, FLowmaster Catbacks, stock cam advanced 4° @ 108.5° ICL, NMRA prepped GT40P heads 1.85/1.55 valves and 1.7 rockers, MAC P headers Jet-Hot coated, 97 Exlporer intake (ported lower), TB and injectors. 277RWHP/330RWTQ (SAE).
http://www.fastlanecars.com/
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