diff --git a/web/app/components/plugins/plugin-detail-panel/tool-selector/index.tsx b/web/app/components/plugins/plugin-detail-panel/tool-selector/index.tsx
index 7a378b178a..9fe69766ac 100644
--- a/web/app/components/plugins/plugin-detail-panel/tool-selector/index.tsx
+++ b/web/app/components/plugins/plugin-detail-panel/tool-selector/index.tsx
@@ -23,7 +23,7 @@ import Textarea from '@/app/components/base/textarea'
 import Divider from '@/app/components/base/divider'
 import TabSlider from '@/app/components/base/tab-slider-plain'
 import ReasoningConfigForm from '@/app/components/plugins/plugin-detail-panel/tool-selector/reasoning-config-form'
-import { generateFormValue, toolParametersToFormSchemas } from '@/app/components/tools/utils/to-form-schema'
+import { generateFormValue, getPlainValue, getStructureValue, toolParametersToFormSchemas } from '@/app/components/tools/utils/to-form-schema'
 
 import { useAppContext } from '@/context/app-context'
 import {
@@ -172,9 +172,10 @@ const ToolSelector: FC<Props> = ({
   const paramsFormSchemas = useMemo(() => toolParametersToFormSchemas(currentToolParams), [currentToolParams])
 
   const handleSettingsFormChange = (v: Record<string, any>) => {
+    const newValue = getStructureValue(v)
     const toolValue = {
       ...value,
-      settings: v,
+      settings: newValue,
     }
     onSelect(toolValue as any)
   }
@@ -402,7 +403,7 @@ const ToolSelector: FC<Props> = ({
                           readOnly={false}
                           nodeId={nodeId}
                           schema={settingsFormSchemas as any}
-                          value={value?.settings || {}}
+                          value={getPlainValue(value?.settings || {})}
                           onChange={handleSettingsFormChange}
                         />
                       </div>
diff --git a/web/app/components/tools/utils/to-form-schema.ts b/web/app/components/tools/utils/to-form-schema.ts
index 68c1ef6e2b..ee7f3379ad 100644
--- a/web/app/components/tools/utils/to-form-schema.ts
+++ b/web/app/components/tools/utils/to-form-schema.ts
@@ -1,4 +1,7 @@
 import type { ToolCredential, ToolParameter } from '../types'
+import { FormTypeEnum } from '@/app/components/header/account-setting/model-provider-page/declarations'
+import { VarType as VarKindType } from '@/app/components/workflow/nodes/tool/types'
+
 export const toType = (type: string) => {
   switch (type) {
     case 'string':
@@ -110,6 +113,26 @@ export const generateFormValue = (value: Record<string, any>, formSchemas: { var
   return newValues
 }
 
+export const getPlainValue = (value: Record<string, any>) => {
+  const plainValue = { ...value }
+  Object.keys(plainValue).forEach((key) => {
+    plainValue[key] = {
+      ...value[key].value,
+    }
+  })
+  return plainValue
+}
+
+export const getStructureValue = (value: Record<string, any>) => {
+  const newValue = { ...value } as any
+  Object.keys(newValue).forEach((key) => {
+    newValue[key] = {
+      value: value[key],
+    }
+  })
+  return newValue
+}
+
 export const getConfiguredValue = (value: Record<string, any>, formSchemas: { variable: string; type: string; default?: any }[]) => {
   const newValues = { ...value }
   formSchemas.forEach((formSchema) => {
@@ -125,3 +148,49 @@ export const getConfiguredValue = (value: Record<string, any>, formSchemas: { va
   })
   return newValues
 }
+
+const getVarKindType = (type: FormTypeEnum) => {
+    if (type === FormTypeEnum.file || type === FormTypeEnum.files)
+      return VarKindType.variable
+    if (type === FormTypeEnum.select || type === FormTypeEnum.boolean || type === FormTypeEnum.textNumber)
+      return VarKindType.constant
+    if (type === FormTypeEnum.textInput || type === FormTypeEnum.secretInput)
+      return VarKindType.mixed
+  }
+
+export const generateAgentToolValue = (value: Record<string, any>, formSchemas: { variable: string; default?: any; type: string }[], isReasoning = false) => {
+  const newValues = {} as any
+  if (!isReasoning) {
+    formSchemas.forEach((formSchema) => {
+      const itemValue = value[formSchema.variable]
+      newValues[formSchema.variable] = {
+        value: {
+          type: 'constant',
+          value: itemValue.value,
+        },
+      }
+      newValues[formSchema.variable].value = correctInitialData(formSchema.type, newValues[formSchema.variable].value, itemValue.value)
+    })
+  }
+  else {
+    formSchemas.forEach((formSchema) => {
+      const itemValue = value[formSchema.variable]
+      if (itemValue.auto === 1) {
+        newValues[formSchema.variable] = {
+          auto: 1,
+          value: null,
+        }
+      }
+      else {
+        newValues[formSchema.variable] = {
+          auto: 0,
+          value: itemValue.value || {
+            type: getVarKindType(formSchema.type as FormTypeEnum),
+            value: null,
+          },
+        }
+      }
+    })
+  }
+  return newValues
+}
diff --git a/web/app/components/workflow/nodes/_base/components/form-input-item.tsx b/web/app/components/workflow/nodes/_base/components/form-input-item.tsx
index d528e95285..0c98620ada 100644
--- a/web/app/components/workflow/nodes/_base/components/form-input-item.tsx
+++ b/web/app/components/workflow/nodes/_base/components/form-input-item.tsx
@@ -152,7 +152,7 @@ const FormInputItem: FC<Props> = ({
       [variable]: {
         ...varInput,
         type: getVarKindType(),
-        value: newValue,
+        value: isNumber ? Number.parseFloat(newValue) : newValue,
       },
     })
   }
diff --git a/web/app/components/workflow/nodes/agent/use-config.ts b/web/app/components/workflow/nodes/agent/use-config.ts
index 1dc20fcbcd..0a3be6c76c 100644
--- a/web/app/components/workflow/nodes/agent/use-config.ts
+++ b/web/app/components/workflow/nodes/agent/use-config.ts
@@ -7,7 +7,7 @@ import {
   useIsChatMode,
   useNodesReadOnly,
 } from '@/app/components/workflow/hooks'
-import { useCallback, useMemo } from 'react'
+import { useCallback, useEffect, useMemo } from 'react'
 import { type ToolVarInputs, VarType } from '../tool/types'
 import { useCheckInstalled, useFetchPluginsInMarketPlaceByIds } from '@/service/use-plugins'
 import type { Memory, Var } from '../../types'
@@ -15,6 +15,8 @@ import { VarType as VarKindType } from '../../types'
 import useAvailableVarList from '../_base/hooks/use-available-var-list'
 import produce from 'immer'
 import { isSupportMCP } from '@/utils/plugin-version-feature'
+import { FormTypeEnum } from '@/app/components/header/account-setting/model-provider-page/declarations'
+import { generateAgentToolValue, toolParametersToFormSchemas } from '@/app/components/tools/utils/to-form-schema'
 
 export type StrategyStatus = {
   plugin: {
@@ -87,11 +89,12 @@ const useConfig = (id: string, payload: AgentNodeType) => {
   })
   const formData = useMemo(() => {
     const paramNameList = (currentStrategy?.parameters || []).map(item => item.name)
-    return Object.fromEntries(
+    const res = Object.fromEntries(
       Object.entries(inputs.agent_parameters || {}).filter(([name]) => paramNameList.includes(name)).map(([key, value]) => {
         return [key, value.value]
       }),
     )
+    return res
   }, [inputs.agent_parameters, currentStrategy?.parameters])
   const onFormChange = (value: Record<string, any>) => {
     const res: ToolVarInputs = {}
@@ -107,6 +110,42 @@ const useConfig = (id: string, payload: AgentNodeType) => {
     })
   }
 
+  const formattingToolData = (data: any) => {
+    const settingValues = generateAgentToolValue(data.settings, toolParametersToFormSchemas(data.schemas.filter((param: { form: string }) => param.form !== 'llm') as any))
+    const paramValues = generateAgentToolValue(data.parameters, toolParametersToFormSchemas(data.schemas.filter((param: { form: string }) => param.form === 'llm') as any), true)
+    const res = produce(data, (draft: any) => {
+      draft.settings = settingValues
+      draft.parameters = paramValues
+    })
+    return res
+  }
+
+  const formattingLegacyData = () => {
+    if (inputs.version)
+      return inputs
+    const newData = produce(inputs, (draft) => {
+      const schemas = currentStrategy?.parameters || []
+      Object.keys(draft.agent_parameters || {}).forEach((key) => {
+        const targetSchema = schemas.find(schema => schema.name === key)
+        if (targetSchema?.type === FormTypeEnum.toolSelector)
+          draft.agent_parameters![key].value = formattingToolData(draft.agent_parameters![key].value)
+        if (targetSchema?.type === FormTypeEnum.multiToolSelector)
+          draft.agent_parameters![key].value = draft.agent_parameters![key].value.map((tool: any) => formattingToolData(tool))
+      })
+      draft.version = '2'
+    })
+    return newData
+  }
+
+  // formatting legacy data
+  useEffect(() => {
+    if (!currentStrategy)
+      return
+    const newData = formattingLegacyData()
+    setInputs(newData)
+    // eslint-disable-next-line react-hooks/exhaustive-deps
+  }, [currentStrategy])
+
   // vars
 
   const filterMemoryPromptVar = useCallback((varPayload: Var) => {
diff --git a/web/app/components/workflow/utils/workflow-init.ts b/web/app/components/workflow/utils/workflow-init.ts
index cd4ab1a095..8610bbe9d1 100644
--- a/web/app/components/workflow/utils/workflow-init.ts
+++ b/web/app/components/workflow/utils/workflow-init.ts
@@ -27,7 +27,6 @@ import type { QuestionClassifierNodeType } from '../nodes/question-classifier/ty
 import type { IfElseNodeType } from '../nodes/if-else/types'
 import { branchNameCorrect } from '../nodes/if-else/utils'
 import type { IterationNodeType } from '../nodes/iteration/types'
-import type { AgentNodeType } from '../nodes/agent/types'
 import type { LoopNodeType } from '../nodes/loop/types'
 import type { ToolNodeType } from '../nodes/tool/types'
 import {
@@ -305,13 +304,6 @@ export const initialNodes = (originNodes: Node[], originEdges: Edge[]) => {
       }
     }
 
-    if (node.data.type === BlockEnum.Agent && !(node as Node<AgentNodeType>).data.version) {
-      // TODO: formatting legacy agent node data
-      // (node as Node<ToolNodeType>).data.version = '2'
-      // const toolData = (node as Node<AgentNodeType>).data.agent_parameters?.tool
-      // const multipleTools = (node as Node<AgentNodeType>).data.agent_parameters?.multiple_tools
-    }
-
     return node
   })
 }