Missing Date Portion
As the other correct answers said, you are using the java.util.Date class which is a date-time class holding both a date portion and a time portion.
LocalTime
If you truly care about only time of day, with no date and no time zone, then use the LocalTime class found in both the Joda-Time library and the new java.tome package in Java 8. By the way the old java.util.Date and .Calendar classes are notoriously troublesome and should be avoided.
Joda-Time
Here is some code with date-time and time zone.
Using the Joda-Time 2.3 library…
DateTimeZone timeZone = DateTimeZone.forID( "Europe/Warsaw" );
DateTime dateTime = new DateTime( 2014, 1, 2, 8, 45, 0, timeZone );
DateTime now = new DateTime( 2014, 1, 2, 8, 30, 0, timeZone ); // Or DateTime.now( timeZone )
Duration duration = new Duration( dateTime, now ); // or use Period or Interval.
Joda-Time offers intelligent classes and methods of working with a span of time (a Period, Interval, or Duration). For example look at the Minutes class. But if all you need is millseconds, here you go.
long millis = duration.getMillis();