InDesign CS5 exports PDFs where EPS elements have low resolution

I am rather new to InDesign CS5. I am currently working on a magazine, where I use graphics in TIFF and EPS. The exported PDF shows graphics in correct quality (300 dpi - TIFF) and graphics with poor resolution -> EPS. How is that even possible? The problem disappears when I use .AI, but it should work with EPS to, shouldn't it?
I figured that it might have something to do with the Transparency Flattener Presets, am I right? My presets are set to "low resolution" and it is not possible to set them to "hight resolution", as InDesign refuses to remember those settings.
Please help!

Well, I was just trying to figure out why it's happening and thought that it might have something to do with the transparency flattening.
My colleagues, who also work with InDesign (althought with older versions), always use EPS and they never have problems. But your advice is not to use EPS format, am I right?

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Process: Adobe InDesign CS4 [46404]
Path: /Applications/Adobe InDesign CS4/Adobe InDesign CS4.app/Contents/MacOS/Adobe InDesign CS4
Identifier: com.adobe.InDesign
Version: 6.0.0.352 (6000)
Code Type: PPC (Translated)
Parent Process: launchd [75]
Date/Time: 2009-02-03 17:23:00.514 +0000
OS Version: Mac OS X 10.5.6 (9G55)
Report Version: 6
Exception Type: EXC_BAD_ACCESS (SIGBUS)
Exception Codes: KERN_PROTECTION_FAILURE at 0x000000000000000b
Crashed Thread: 0
Thread 0 Crashed:
0 ??? 0x550dd9cb 0 + 1426971083
Thread 1:
0 ??? 0x800bc1c6 0 + 2148254150
1 ??? 0x800c39bc 0 + 2148284860
2 translate 0xb818b6ea CallPPCFunctionAtAddressInt + 202886
3 ??? 0x800ed095 0 + 2148454549
4 ??? 0x800ecf52 0 + 2148454226
Thread 2:
0 translate 0xb815289e spin_lock_wrapper + 90594
1 translate 0xb816e8a7 CallPPCFunctionAtAddressInt + 84547
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 3:
0 translate 0xb8152c24 spin_lock_wrapper + 91496
1 translate 0xb81714a8 CallPPCFunctionAtAddressInt + 95812
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 4:
0 translate 0xb81529ef spin_lock_wrapper + 90931
1 translate 0xb8183633 CallPPCFunctionAtAddressInt + 169935
2 translate 0xb81861e2 CallPPCFunctionAtAddressInt + 181118
3 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 5:
0 translate 0xb8152c24 spin_lock_wrapper + 91496
1 translate 0xb816c825 CallPPCFunctionAtAddressInt + 76225
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 6:
0 translate 0xb815282c spin_lock_wrapper + 90480
1 translate 0xb816e6a1 CallPPCFunctionAtAddressInt + 84029
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 7:
0 translate 0xb815282c spin_lock_wrapper + 90480
1 translate 0xb816f427 CallPPCFunctionAtAddressInt + 87491
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 8:
0 translate 0xb8152be5 spin_lock_wrapper + 91433
1 translate 0xb8162e31 CallPPCFunctionAtAddressInt + 36813
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 9:
0 translate 0xb815289e spin_lock_wrapper + 90594
1 translate 0xb816e8a7 CallPPCFunctionAtAddressInt + 84547
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 10:
0 translate 0xb815282c spin_lock_wrapper + 90480
1 translate 0xb816e6a1 CallPPCFunctionAtAddressInt + 84029
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 11:
0 translate 0xb815282c spin_lock_wrapper + 90480
1 translate 0xb816f427 CallPPCFunctionAtAddressInt + 87491
2 translate 0xb80dfb0b 0xb8000000 + 916235
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0 translate 0xb815282c spin_lock_wrapper + 90480
1 translate 0xb816e6a1 CallPPCFunctionAtAddressInt + 84029
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0 translate 0xb815282c spin_lock_wrapper + 90480
1 translate 0xb816e6a1 CallPPCFunctionAtAddressInt + 84029
2 translate 0xb80dfb0b 0xb8000000 + 916235
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0 translate 0xb815282c spin_lock_wrapper + 90480
1 translate 0xb816e6a1 CallPPCFunctionAtAddressInt + 84029
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 15:
0 translate 0xb815282c spin_lock_wrapper + 90480
1 translate 0xb816f427 CallPPCFunctionAtAddressInt + 87491
2 translate 0xb80dfb0b 0xb8000000 + 916235
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0 translate 0xb81529ef spin_lock_wrapper + 90931
1 translate 0xb8183633 CallPPCFunctionAtAddressInt + 169935
2 translate 0xb81861e2 CallPPCFunctionAtAddressInt + 181118
3 translate 0xb80dfb0b 0xb8000000 + 916235
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0 translate 0xb815282c spin_lock_wrapper + 90480
1 translate 0xb816e6a1 CallPPCFunctionAtAddressInt + 84029
2 translate 0xb80dfb0b 0xb8000000 + 916235
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0 translate 0xb815282c spin_lock_wrapper + 90480
1 translate 0xb816e6a1 CallPPCFunctionAtAddressInt + 84029
2 translate 0xb80dfb0b 0xb8000000 + 916235
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0 translate 0xb8152863 spin_lock_wrapper + 90535
1 translate 0xb816e79d CallPPCFunctionAtAddressInt + 84281
2 translate 0xb80bdb8b 0xb8000000 + 777099
3 translate 0xb80b7007 0xb8000000 + 749575
4 translate 0xb80d49c0 0xb8000000 + 870848
5 translate 0xb813ce79 spin_lock_wrapper + 1981
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0 translate 0xb81529ef spin_lock_wrapper + 90931
1 translate 0xb8183633 CallPPCFunctionAtAddressInt + 169935
2 translate 0xb81861e2 CallPPCFunctionAtAddressInt + 181118
3 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 21:
0 translate 0xb81529ef spin_lock_wrapper + 90931
1 translate 0xb8183633 CallPPCFunctionAtAddressInt + 169935
2 translate 0xb81861e2 CallPPCFunctionAtAddressInt + 181118
3 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 22:
0 translate 0xb8152c24 spin_lock_wrapper + 91496
1 translate 0xb816c825 CallPPCFunctionAtAddressInt + 76225
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 23:
0 translate 0xb8152c24 spin_lock_wrapper + 91496
1 translate 0xb81714a8 CallPPCFunctionAtAddressInt + 95812
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 24:
0 translate 0xb8152be5 spin_lock_wrapper + 91433
1 translate 0xb8162cb9 CallPPCFunctionAtAddressInt + 36437
2 translate 0xb80bdb8b 0xb8000000 + 777099
3 translate 0xb80b7007 0xb8000000 + 749575
4 translate 0xb80d49c0 0xb8000000 + 870848
5 translate 0xb813d75f spin_lock_wrapper + 4259
Thread 25:
0 translate 0xb815289e spin_lock_wrapper + 90594
1 translate 0xb816e8a7 CallPPCFunctionAtAddressInt + 84547
2 translate 0xb80dfb0b 0xb8000000 + 916235
Thread 26:
0 ??? 0x800c33ae 0 + 2148283310
1 ??? 0x800edd0d 0 + 2148457741
2 ??? 0xe9ddbb32 0 + 3923622706
3 ??? 0x800ed095 0 + 2148454549
4 ??? 0x800ecf52 0 + 2148454226
Thread 27:
0 translate 0xb815289e spin_lock_wrapper + 90594
1 translate 0xb816e8a7 CallPPCFunctionAtAddressInt + 84547
2 translate 0xb80dfb0b 0xb8000000 + 916235

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InDesign CS5 exports PDFs where EPS elements have low resolution

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