I tried to reproduce this with 2-node Ignite cluster running upon HDFS.
I tried action sequences like this: put some files/dirs , move/delete some
files/dirs, restart one of the nodes.
The metrics were observed via JConsole.
I used Ignite 2.1.
Unfortunately, I was not able to reproduce the issue.
My configs are like this:

                    <property name="metaCacheConfiguration">
                         <bean
class="org.apache.ignite.configuration.CacheConfiguration">
                              <property name="atomicityMode"
value="TRANSACTIONAL"/>
                              <property name="cacheMode"
value="PARTITIONED"/>
                              <property name="backups" value="1"/>
                              <property name="statisticsEnabled"
value="true"/>
                         </bean>
                    </property>

                    <property name="dataCacheConfiguration">
                         <bean
class="org.apache.ignite.configuration.CacheConfiguration">
                              <property name="atomicityMode"
value="TRANSACTIONAL"/>
                              <property name="cacheMode"
value="PARTITIONED"/>
                              <property name="backups" value="0"/>
                              <property name="statisticsEnabled"
value="true"/>
                         </bean>
                    </property>

....
                    <property name="secondaryFileSystem">
                        <bean
class="org.apache.ignite.hadoop.fs.IgniteHadoopIgfsSecondaryFileSystem">
                            <property name="fileSystemFactory">
                                <bean
class="org.apache.ignite.hadoop.fs.CachingHadoopFileSystemFactory">
                                    <property name="uri"
value="hdfs://localhost:9000/"/>
                                </bean>
                            </property>
                        </bean>
                    </property>

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