Same/similar problem for me.
Had a 1.0.1 server and just replaced all files except "server.properties"
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---- Minecraft Crash Report ----
// I blame Dinnerbone.
Time: 2013-08-09 08:55
Description: Exception in server tick loop
cpw.mods.fml.common.DuplicateModsFoundException
at cpw.mods.fml.common.Loader.identifyDuplicates(Loader.java:392)
at cpw.mods.fml.common.Loader.identifyMods(Loader.java:349)
at cpw.mods.fml.common.Loader.loadMods(Loader.java:480)
at cpw.mods.fml.server.FMLServerHandler.beginServerLoading(FMLServerHandler.java:85)
at cpw.mods.fml.common.FMLCommonHandler.onServerStart(FMLCommonHandler.java:350)
at net.minecraft.server.dedicated.DedicatedServer.func_71197_b(DedicatedServer.java:69)
at net.minecraft.server.MinecraftServer.run(MinecraftServer.java:431)
at net.minecraft.server.ThreadMinecraftServer.run(SourceFile:573)
A detailed walkthrough of the error, its code path and all known details is as follows:
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-- System Details --
Details:
Minecraft Version: 1.5.2
Operating System: Windows Server 2008 R2 (amd64) version 6.1
Java Version: 1.7.0_25, Oracle Corporation
Java VM Version: Java HotSpot 64-Bit Server VM (mixed mode), Oracle Corporation
Memory: 1739981424 bytes (1659 MB) / 2058027008 bytes (1962 MB) up to 2863333376 bytes (2730 MB)
JVM Flags: 2 total; -Xmx3G -Xms2G
AABB Pool Size: 0 (0 bytes; 0 MB) allocated, 0 (0 bytes; 0 MB) used
Suspicious classes: FML and Forge are installed
IntCache: cache: 0, tcache: 0, allocated: 0, tallocated: 0
FML: MCP v7.51 FML v5.2.23.737 Minecraft Forge 7.8.1.737 83 mods loaded, 0 mods active
mcp{7.51} [Minecraft Coder Pack] (minecraft.jar)
FML{5.2.23.737} [Forge Mod Loader] (coremods)
Forge{7.8.1.737} [Minecraft Forge] (coremods)
CodeChickenCore{0.8.7.3} [CodeChicken Core] (coremods)
CodeChickenCore{0.8.7.3} [CodeChicken Core] (coremods)
CoFHFramework{1.5.2.4} [CoFH Framework] (coremods)
CoFHFramework{1.5.2.4} [CoFH Framework] (coremods)
ImmibisMicroblocks{55.0.1} [immibis's Microblocks] (coremods)
ImmibisMicroblocks{55.0.1} [immibis's Microblocks] (coremods)
NotEnoughItems{1.5.2.28} [Not Enough Items] (coremods)
TreeCapitator{Forge 1.5.2.r01} [TreeCapitator] ([1.5.2]TreeCapitator.Forge.1.5.2.r01.Uni.CoreMod.jar)
TreeCapitator{Forge 1.5.2.r14} [TreeCapitator] ([1.5.2]TreeCapitator.Forge.1.5.2.r14.Uni.CoreMod.jar)
CoFHCore{1.5.2.4} [CoFHCore] (CoFHCore-1.5.2.4.jar)
CoFHWorld{1.5.2.4} [CoFHWorld] (CoFHCore-1.5.2.4.jar)
CoFHCore{1.5.2.5} [CoFHCore] (CoFHCore-1.5.2.5.jar)
CoFHWorld{1.5.2.5} [CoFHWorld] (CoFHCore-1.5.2.5.jar)
ImmibisMicroblocksInstallCheck{55.0.1} [immibis's Microblocks (Check for incorrect installation)] (immibis-microblocks-55.0.1.jar)
ImmibisMicroblocksInstallCheck{55.0.7} [immibis's Microblocks (Checks for incorrect installation, ignore this)] (immibis-microblocks-55.0.7.jar)
DamageIndicatorsMod{2.7.0.1} [Damage Indicators] (1.5.2 DamageIndicators v2.7.0.1.zip)
ASAddon_Hallowed{2.0.0} [AS Addon- Hallowed] (1.5.2ASAddonHallowed_v2.0.0Forge.zip)
ASAddon_HarkenScythe{2.0.0} [AS Addon- HarkenScythe] (1.5.2ASAddonHarkenScythe_v2.0.0Forge.zip)
ASAddon_NetherEnder{2.0.0} [AS Addon- Nether-Ender] (1.5.2ASAddonNetherEnder_v2.0.0Forge.zip)
ASAddon_ColorAPI{1.0.0} [ASAddon_ColorAPI] (1.5.2AsgardShield_Core_2.0.4Forge.zip)
AsgardShield_Core{2.0.4} [AsgardShield] (1.5.2AsgardShield_Core_2.0.4Forge.zip)
HarkenScythe_Core{2.1.6} [HarkenScythe] (1.5.2HarkenScythe_v2.1.6Forge.zip)
BetterStorage{0.6.2.23} [betterStorage] ([1.5.2]BetterStorage_0.6.2.23.zip)
mod_bspkrsCore{Not available} [mod_bspkrsCore] ([1.5.2]bspkrsCorev2.07.zip)
mod_bspkrsCore{Not available} [mod_bspkrsCore] ([1.5.2]bspkrsCorev2.09.zip)
Artifice{1.5.2R1.1.1} [Artifice] (Artifice-1.1.1-131.jar)
ArtificeCompat|Chisel{1.5.2R1.1.1} [Artifice Compat: Chisel] (Artifice-1.1.1-131.jar)
ArtificeCompat|EE3{1.5.2R1.1.1} [Artifice Compat: EE3] (Artifice-1.1.1-131.jar)
ArtificeCompat|MFR{1.5.2R1.1.1} [Artifice Compat: MFR] (Artifice-1.1.1-131.jar)
ArtificeCompat|Vanilla{1.5.2R1.1.1} [Artifice Compat: Vanilla] (Artifice-1.1.1-131.jar)
Artifice{1.5.2R1.1.2} [Artifice] (Artifice-1.1.2-142.jar)
ArtificeCompat|Chisel{1.5.2R1.1.2} [Artifice Compat: Chisel] (Artifice-1.1.2-142.jar)
ArtificeCompat|EE3{1.5.2R1.1.2} [Artifice Compat: EE3] (Artifice-1.1.2-142.jar)
ArtificeCompat|Forestry{1.5.2R1.1.2} [Artifice Compat: Forestry] (Artifice-1.1.2-142.jar)
ArtificeCompat|MFR{1.5.2R1.1.2} [Artifice Compat: MFR] (Artifice-1.1.2-142.jar)
ArtificeCompat|Railcraft{1.5.2R1.1.2} [Artifice Compat: Railcraft] (Artifice-1.1.2-142.jar)
ArtificeCompat|Vanilla{1.5.2R1.1.2} [Artifice Compat: Vanilla] (Artifice-1.1.2-142.jar)
Backpack{1.12.13} [backpack] (backpack-1.12.13-1.5.2.zip)
Backpack{1.9.11} [backpack] (backpack-1.9.11-1.5.2.zip)
BattleTowers{1.3.4} [battle Towers] (BattleTowers_1.5.2.zip)
BetterDungeons{1.8} [better dungeons] (BetterDungeons.zip)
BiblioCraft{1.3.1} [biblioCraft] (BiblioCraft[v1.3.1].zip)
BiblioCraft{1.3.3} [biblioCraft] (BiblioCraft[v1.3.3].zip)
ChestTransporter{1.1.6} [Chest Transporter] (chestTransporter_1.1.6_Universal.zip)
DimDoors{1.5.2R1.4.0RC1} [Dimensional Doors] (DimensionalDoors-1.5.2R1.4.0RC1-149.zip)
DimDoors{1.5.2R1.4.1RC1} [Dimensional Doors] (DimensionalDoors-1.5.2R1.4.1RC1-194.zip)
eplus{1.15.4} [Enchanting Plus] (EnchantingPlus-1.15.4.jar)
eplus{1.15} [Enchanting Plus] (EnchantingPlus-1.15.jar)
ExtrabiomesXL{3.13.4} [ExtrabiomesXL] (ExtrabiomesXL-universal-1.5.2-3.13.4.jar)
hexxitgear{1.5.2R1.0} [Hexxit Gear] (HexxitGear-1.0-23.jar)
ImmibisCore{55.1.2} [immibis Core] (immibis-core-55.1.2.jar)
ImmibisCore{55.1.6} [immibis Core] (immibis-core-55.1.6.jar)
InfernalMobs{1.3.1} [infernal Mobs] (InfernalMobs_1.5.2.zip)
Meteors{2.10.2} [Falling Meteors] (Meteors Mod V2.10.2.zip)
More Bows{1.5_v1} [More Bows mod] (More bows 1.5.2_2 Forge.jar)
Natura{2.1.2} [Natura] (Natura_2.1.2.jar)
Natura|CompatMineFactoryReloaded{0.1} [Natura compat: MFR] (Natura_2.1.2.jar)
Natura{1.5.1_2.1} [Natura] (Natura_2.1.jar)
Natura|CompatMineFactoryReloaded{0.1} [Natura compat: MFR] (Natura_2.1.jar)
LegendGear{1.5.2} [LegendGear] (NMcCoy-LegendGear-1.5.2.zip)
ObsidiPlates{1.5.0} [Obsidian Pressure Plates] (obsidiplates-1.5.2-universal-1.5.0.13.jar)
OffLawn{1.0} [offLawn] (OffLawn-1.5.1.zip)
ProjectZulu|Blocks{1.0.3.8} [Project Zulu Block and Items] (ProjectZuluCompletev1.0.3.8.zip)
ProjectZulu|Core{1.0.3.8} [Project Zulu Core] (ProjectZuluCompletev1.0.3.8.zip)
ProjectZulu|Dungeon{1.0.3.8} [Project Zulu Mobs] (ProjectZuluCompletev1.0.3.8.zip)
ProjectZulu|Mobs{1.0.3.8} [Project Zulu Mobs] (ProjectZuluCompletev1.0.3.8.zip)
ProjectZulu|World{1.0.3.8} [Project Zulu World] (ProjectZuluCompletev1.0.3.8.zip)
xreliquary{1.5.2} [Xeno's Reliquary] (Reliquary1.0.6d.zip)
rftl{1.0} [RottenFleshToLeather] (RottenFleshToLeather-1.5.1.zip)
AS_Ruins{10.3} [Ruins Spawning System] (Ruins_1.5.2.zip)
secretroomsmod{4.6.0} [secretRoomsMod] (SecretRoomsMod-universal-4.6.0.283.zip)
SoulShards{1.0.16} [soul Shards] (SoulShards-1.0.36-universal-srg.jar)
TConstruct|CompatMineFactoryReloaded{0.1} [TConstruct Compat: MFR] (TConstruct_1.3.4.3.jar)
TConstruct{1.5.1_1.3.4.3} [Tinkers' Construct] (TConstruct_1.3.4.3.jar)
TConstruct|CompatMineFactoryReloaded{0.1} [TConstruct Compat: MFR] (TConstruct_1.4.0.jar)
TConstruct{1.5.1_1.4.0} [Tinkers' Construct] (TConstruct_1.4.0.jar)
TwilightForest{1.18.1} [The Twilight Forest] (twilightforest-1.18.1.zip)
WildCaves3{0.4.2} [Wild Caves 3] (WildCaves3-0.4.2.zip)
chococraft{2.8.6} [Torojima's ChocoCraft] (zzzChococraft_2.8.6.zip)
chococraft{2.8.8} [Torojima's ChocoCraft] (zzzChococraft_2.8.8.zip)
Profiler Position: N/A (disabled)
Is Modded: Definitely; Server brand changed to 'fml,forge'
Type: Dedicated Server (map_server.txt)
