Just in case anyone comes across this and needs the fix, here is what you need.
Before you <html> tag add these
<%@ Register TagPrefix="dnn" TagName="SEARCH" Src="~/Admin/Skins/Search.ascx" %>
<%@ Register TagPrefix="dnn" TagName="NAV" Src="~/Admin/Skins/Nav.ascx" %>
And then add these anywhere in the html note: the comments are there on purpose
<!--
<dnn:SEARCH runat="server" id="dnnSEARCH" CssClass="ServerSkinWidget" UseDropDownList="True" submit="<img src="images/search.gif" border="0" alt="Search" />" />
<dnn:NAV runat="server" id="dnnNAV" ProviderName="DNNMenuNavigationProvider" IndicateChildren="False" ControlOrientation="Horizontal" CSSNodeRoot="main_dnnmenu_rootitem" CSSNodeHoverRoot="main_dnnmenu_rootitem_hover" CSSNodeSelectedRoot="main_dnnmenu_rootitem_selected" CSSBreadCrumbRoot="main_dnnmenu_rootitem_selected" CSSContainerSub="main_dnnmenu_submenu" CSSNodeHoverSub="main_dnnmenu_itemhover" CSSNodeSelectedSub="main_dnnmenu_itemselected" CSSContainerRoot="main_dnnmenu_container" CSSControl="main_dnnmenu_bar" CSSBreak="main_dnnmenu_break" />
-->