Another option would be using flexbox.
While it's not supported by IE8 and IE9, you could consider:
Despite some additional browser-specific style prefixing would be necessary for full cross-browser support, you can see the basic usage either on this fiddle and on the following snippet:
html {_x000D_
height: 100%;_x000D_
}_x000D_
html body {_x000D_
height: 100%;_x000D_
overflow: hidden;_x000D_
display: flex;_x000D_
flex-direction: column;_x000D_
}_x000D_
html body .container-fluid.body-content {_x000D_
width: 100%;_x000D_
overflow-y: auto;_x000D_
}_x000D_
header {_x000D_
background-color: #4C4;_x000D_
min-height: 50px;_x000D_
width: 100%;_x000D_
}_x000D_
footer {_x000D_
background-color: #4C4;_x000D_
min-height: 30px;_x000D_
width: 100%;_x000D_
}
_x000D_
<link href="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.2/css/bootstrap.min.css" rel="stylesheet"/>_x000D_
<header></header>_x000D_
<div class="container-fluid body-content">_x000D_
Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>_x000D_
Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>_x000D_
Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>_x000D_
Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>_x000D_
Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>Lorem Ipsum<br/>_x000D_
</div>_x000D_
<footer></footer>
_x000D_