Can you post the css you are using?  Or modify this test app to show the problem you are experiencing:
<!DOCTYPE html>
  <html>
  <head>
  <title>Create a Web Map</title>
  <meta http-equiv="Content-Type" content="text/html; charset=utf-8">
  <meta name="viewport" content="initial-scale=1, maximum-scale=1,user-scalable=no">
  <link rel="stylesheet" type="text/css" href="http://js.arcgis.com/3.11/esri/css/esri.css">
  <style>
    html,body,#mapDiv,.map.container{
      padding:0;
      margin:0;
      height:100%;
    }
    #LocateButton {  
        position: absolute;  
        top: 95px;  
        left: 20px;  
        z-index: 30;  
    }  
    #HomeButton {  
        position: absolute;  
        top: 155px;  
        left: 20px;  
        z-index: 30;
    }  
    #HomeButton .home, #LocateButton .zoomLocateButton{
        width:42px;
        height:42px;
    }
  </style>
  <script>var dojoConfig = { parseOnLoad: true };</script>
  <script src="http://js.arcgis.com/3.11compact/"></script>
  <script>
    var map,
        webmapId = "1a40fa5cc1ab4569b79f45444d728067";
    
    require([
      "esri/map",
      "esri/arcgis/utils",
      "esri/dijit/HomeButton",
      "esri/dijit/LocateButton",
      "dojo/domReady!"
      ], function (Map, arcgisUtils, HomeButton, LocateButton) {
        arcgisUtils.createMap(webmapId, "mapDiv").then(function (response) {
        map = response.map;
        geoLocate = new LocateButton({  
            map: map  
        }, "LocateButton");  
        geoLocate.startup();  
        //set up geolocator and home buttons  
        var home = new HomeButton({  
            map: map  
        }, "HomeButton");  
        home.startup();
    });
    });
  </script>
  </head>
  <body>
    <div id="mapDiv">
        <div id="HomeButton"></div>
        <div id="LocateButton"></div>
    </div>
  </body>
  </html>