The compass in the 109 and most other planes is just that, a compass, there is no Direction Finding ability. You use the compass to mark headings where you came from, where you're going, where the target is etc. It's there for manual navigation, like "pilotage". To home in on an NDB beacon you need to use the DF instruments, which are described in the 4.10 guide. The waypoints are just markings on a map, they don't represent anything real that you can home in on. The best guide I can suggest is look up NDB navigation, or pick up a copy of "from the ground up" (recommend for everyone, this will answer all your engine/prop/navigation questions, excellent book!) and read the navigation section. It's not difficult per say, it just takes practice. Some aircraft like the Ju-88 and Bf-110 have a direction finding compass that homes to a beacon, but I suggest learning to home to the crosshairs first.
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