You know, I somewhat doubt the memory profiler here. The memory management system in .NET actually tries to defragment the heap for you by moving around memory (that's why you need to pin memory for it to be shared with an external DLL).
Large memory allocations taken over longer periods of time is prone to more fragmentation. While small ephemeral (short) memory requests are unlikely to cause fragmentation in .NET.
Here's also something worth thinking about. With the current GC of .NET, memory allocated close in time, is typically spaced close together in space. Which is the opposite of fragmentation. i.e. You should allocate memory the way you intend to access it.
Is it a managed code only or does it contains stuff like P/Invoke, unmanaged memory (Marshal.AllocHGlobal) or stuff like GCHandle.Alloc(obj, GCHandleType.Pinned)?
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