Welcome to the forums, guggles2004.
These seem to be causing the issues:
On the lt IE 9 specific style sheet, Line 64, text-align is set to left.
Code:
.site-header h1,
.site-header h2 {
text-align: left;
}
Line 93 the color of the anchors is set to gray.
Code:
.main-navigation li a {
border-bottom: 0;
color: #6a6a6a;
line-height: 3.692307692;
text-transform: uppercase;
}
Line 139 the color of the active menu item is also set to gray.
Code:
.main-navigation .current-menu-item > a,
.main-navigation .current-menu-ancestor > a,
.main-navigation .current_page_item > a,
.main-navigation .current_page_ancestor > a {
color: #636363;
font-weight: bold;
}
all behaving "as designed" 
I will hazard a guess that you could delete these (or comment them out) from the lt IE 9 stylesheet to fix the problem.
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