Can you change order files are displayed?

The dates are not saved in the database, however since the plugin is driven by file folders instead of the database, you can create an array of the files first, sort by date, then run the file array through the function to list them. Hope this helps.

in functions.php, create new function, list them in array.

##########################
# My List User Files        #
##########################
function MyListUserFiles($files,$userID,$fl) {
	global $wpdb;
	global $post;
	$c = 1; //why c is created and defined as 1?
	// foreach is used to list file
	foreach($files as $Thefile) {
		$ext = pathinfo($Thefile['file'], PATHINFO_EXTENSION);
		$tExt =  SetIcon($ext); // for the icon
		$rowClass = ($c++%2==1)?'odd_files':'even_files'; // what does this mean?
		echo '<td class="'.$rowClass.'" align="center"><img src="'. $tExt.'" width="20" style="margin-top: 5px; margin-bottom: -5px; -webkit-box-shadow: inset 0px 0px 10px 0px rgba(3, 156, 212, 0.14); box-shadow: inset 0px 0px 10px 0px rgba(3, 156, 212, 0.14);"></td>';
		// Document Description
		echo '<td class="'.$rowClass.'" width="50%" style="font-weight: bold; font-size: 12px;">'.pathinfo($Thefile['file'], PATHINFO_FILENAME) .'</td>';
		// Date Uploaded
		echo '<td class="'.$rowClass.'" align="center" width="60px">'. GetTimeStamp($Thefile['file'],$userID)  .'</td>';
		// Category
		echo '<td class="'.$rowClass.'" align="center" width="60px">';
		$currOpts_defcat = get_option('file_manger_defaultcat');
		$getCrntCat = $wpdb->get_var("SELECT category FROM ". $wpdb->prefix . "userfile_data WHERE filename = '".$Thefile['file'] ."' and user_id='" .$userID. "'");
		if (!$getCrntCat) {
			echo $currOpts_defcat;
		}else{
			echo $getCrntCat;
		}
		echo'</td>';
		if (strpos(curPageName(),'?') ==false){
			$dnlLink = curPageName().'?theDLfile='.$userID.'/'.$Thefile['file'];
			$DelLink = curPageName().'?deletefile='.$userID.'/'.$Thefile['file'];
		}else{
			if(!$post->ID){
				$DelLink = curPageName().'&deletefile='.$userID.'/'.$Thefile['file'];
				$dnlLink = curPageName().'&theDLfile='.$userID.'/'.$Thefile['file'];
			}else{
				$DelLink = '?page_id='.$post->ID.'&deletefile='.$userID.'/'.$Thefile['file'];
				$dnlLink = '?page_id='.$post->ID.'&theDLfile='.$userID.'/'.$Thefile['file'];
			}
		}
		// Download
		echo '<td class="'.$rowClass.'" width="80px"><span  class="user-files-download"><a  href="'.$dnlLink.'">Download</a></span>';
		// Delete
		if(get_option('file_manger_allow_del')=='yes') {
			echo '<td class="'.$rowClass.'" align="center"><a href="'.$DelLink.'" class="user-files-delete">Delete</a></td></tr>';
		} else {
			echo '</td></tr>';
		}
	}
}

function cmp($a, $b) {
        return $b["created_at"] - $a["created_at"];
}

In user-files.php, call them using this

MyListUserFiles($files,$current_user->ID,$count);